Estimates of molecular convergence reveal multiple genes with adaptive variation across teleost fishes - Report
Agneesh Barua
21/06/2025
This report comprises R code used in the current manuscript. Users can load the appropriate Rmd files found in the electronic supplementary material (DatasetS10_Scripts) and reproduce the analysis and steps showed here. Electronic supplementary material containing all the data files can be found at: https://zenodo.org/records/12645625
Users are free to use any piece of code in heir own studies. If you
use any of the code here please cite:
Estimates of molecular convergence reveal genes with intermediate
pleiotropy underlying adaptive variation across teleost fish doi: https://doi.org/10.1101/2024.06.24.600426
Processing orthologs from OrthoFinder
For this study, I gathered a list of all teleost species that had chromosomal level annotated genomes from NCBI and Ensembl. I obtained a well resolved rooted phylogeny of all the teleost species in my original list from timetree.org. The time tree had phylogenetic relationship for 143 species. I used only those species in this study as having a well-resolved unambiguous species tree is crucial for this study. I next downloaded protein and CSD data from all 143 species. I constructed orthologs using Orthofinder.
Functions to process OrthoFinder output
In this section I process the tsv output of orthofinder to give a parsable data structure.
make_orth_table<-function(.data,var){
.data %>% drop_na()->d
ncols<-max(stringr::str_count(d$sp,",")) +1
colmn<-paste("col",1:ncols)
d %>% separate(col = sp,sep = ",",into = colmn,remove = T)->d
d %>% pivot_longer(!Orthogroup)->d
d %>% mutate(orths = str_remove(d$value," ")) %>%
dplyr::select(Orthogroup,orths) %>%
drop_na() %>% return()
}
make_orth_table<-function(.x){
orthdata<-read_tsv("Datasets/OF_out.tsv") #ouput from OrthoFinder
orthdata %>% dplyr::select(c(Orthogroup,contains(.x)))->d
ncols<-max(stringr::str_count(d[,2],",")) +1
colmn<-paste("col",1:ncols)
d %>% separate(col = 2,sep = ",",into = colmn,remove = T)->d
d %>% pivot_longer(!Orthogroup)->d
d %>% mutate(orths = str_remove(d$value," ")) %>%
dplyr::select(Orthogroup,orths) %>% drop_na %>% mutate(sp = .x) %>% return()
}Taxonomic data from FishBase
My next step was to select orthgroups that had atleast one member from each of ther orders represented in my list of species. This was to ensure we capture the maximum taxonomic diversity while still having a manageable dataset to work with. To get taxonomic information I used FishBase.
library(rfishbase)
fish<-read_csv("./Datasets/DatasetS0_csv_files/FishList.csv", col_names = "sp") #list of species; redundant file
fish_call<-validate_names(str_replace(fish$sp,"_"," "))
taxa<-rfishbase::load_taxa() %>% filter(Species %in% fish_call) %>% collect() %>% dplyr::select(Species,Order,Family)
fish_data<-tibble(Species = str_replace(taxa$Species," ","_"),
Order = str_split(taxa$Order,pattern = "/",simplify = T)[,1],
Family = taxa$Family) %>% write_csv("./Datasets/DatasetS0_csv_files/Fish_data.csv") #Final list of species, order, and family used in the study. This was used to filter the orthListTaxonomic information of speices used.
tbl<-read.csv("./Datasets/DatasetS0_csv_files/Fish_data.csv")
kbl(head(tbl,500)) %>% kable_styling() %>%
scroll_box(width = "500px", height = "400px")| Species | Order | Family |
|---|---|---|
| Acanthochromis_polyacanthus | Ovalentaria | Pomacentridae |
| Acanthopagrus_latus | Acanthuriformes | Sparidae |
| Ameiurus_melas | Siluriformes | Ictaluridae |
| Albula_goreensis | Albuliformes | Albulidae |
| Alosa_alosa | Clupeiformes | Alosidae |
| Alosa_sapidissima | Clupeiformes | Alosidae |
| Amphiprion_ocellaris | Ovalentaria | Pomacentridae |
| Anabas_testudineus | Anabantiformes | Anabantidae |
| Anguilla_anguilla | Anguilliformes | Anguillidae |
| Anoplopoma_fimbria | Perciformes | Anoplopomatidae |
| Archocentrus_centrarchus | Cichliformes | Cichlidae |
| Astatotilapia_calliptera | Cichliformes | Cichlidae |
| Astyanax_mexicanus | Characiformes | Characidae |
| Betta_splendens | Anabantiformes | Osphronemidae |
| Brienomyrus_brachyistius | Osteoglossiformes | Mormyridae |
| Carassius_auratus | Cypriniformes | Cyprinidae |
| Carassius_carassius | Cypriniformes | Cyprinidae |
| Carassius_gibelio | Cypriniformes | Cyprinidae |
| Centropristis_striata | Perciformes | Serranidae |
| Chaenocephalus_aceratus | Perciformes | Channichthyidae |
| Chanos_chanos | Gonorynchiformes | Chanidae |
| Chelmon_rostratus | Acanthuriformes | Chaetodontidae |
| Cheilinus_undulatus | Labriformes | Labridae |
| Clarias_gariepinus | Siluriformes | Clariidae |
| Corythoichthys_intestinalis | Syngnathiformes | Syngnathidae |
| Clupea_harengus | Clupeiformes | Clupeidae |
| Collichthys_lucidus | Acanthuriformes | Sciaenidae |
| Conger_conger | Anguilliformes | Congridae |
| Coregonus_clupeaformis | Salmoniformes | Salmonidae |
| Cottoperca_gobio | Perciformes | Bovichtidae |
| Ctenopharyngodon_idella | Cypriniformes | Xenocyprididae |
| Cyclopterus_lumpus | Perciformes | Cyclopteridae |
| Cynoglossus_semilaevis | Pleuronectiformes | Cynoglossidae |
| Cyprinus_carpio | Cypriniformes | Cyprinidae |
| Dallia_pectoralis | Esociformes | Umbridae |
| Danio_aesculapii | Cypriniformes | Danionidae |
| Danio_rerio | Cypriniformes | Danionidae |
| Denticeps_clupeoides | Clupeiformes | Denticipitidae |
| Dissostichus_eleginoides | Perciformes | Nototheniidae |
| Doryrhamphus_excisus | Syngnathiformes | Syngnathidae |
| Dunckerocampus_dactyliophorus | Syngnathiformes | Syngnathidae |
| Echeneis_naucrates | Carangiformes | Echeneidae |
| Electrophorus_electricus | Gymnotiformes | Gymnotidae |
| Epinephelus_lanceolatus | Perciformes | Epinephelidae |
| Esox_lucius | Esociformes | Esocidae |
| Etheostoma_cragini | Perciformes | Percidae |
| Etheostoma_spectabile | Perciformes | Percidae |
| Fundulus_heteroclitus | Cyprinodontiformes | Fundulidae |
| Gadus_chalcogrammus | Gadiformes | Gadidae |
| Gadus_morhua | Gadiformes | Gadidae |
| Gambusia_affinis | Cyprinodontiformes | Poeciliidae |
| Gasterosteus_aculeatus | Perciformes | Gasterosteidae |
| Girardinichthys_multiradiatus | Cyprinodontiformes | Goodeidae |
| Gymnothorax_javanicus | Anguilliformes | Muraenidae |
| Gouania_willdenowi | Gobiesociformes | Gobiesocidae |
| Hemibagrus_wyckioides | Siluriformes | Bagridae |
| Hippocampus_zosterae | Syngnathiformes | Syngnathidae |
| Hippoglossus_hippoglossus | Pleuronectiformes | Pleuronectidae |
| Hippoglossus_stenolepis | Pleuronectiformes | Pleuronectidae |
| Hypomesus_transpacificus | Osmeriformes | Osmeridae |
| Ictalurus_furcatus | Siluriformes | Ictaluridae |
| Ictalurus_punctatus | Siluriformes | Ictaluridae |
| Kryptolebias_marmoratus | Cyprinodontiformes | Rivulidae |
| Labeo_rohita | Cypriniformes | Cyprinidae |
| Lampris_incognitus | Lampriformes | Lampridae |
| Larimichthys_crocea | Acanthuriformes | Sciaenidae |
| Lates_calcarifer | Carangiformes | Latidae |
| Lepisosteus_oculatus | Lepisosteiformes | Lepisosteidae |
| Mastacembelus_armatus | Synbranchiformes | Mastacembelidae |
| Maylandia_zebra | Cichliformes | Cichlidae |
| Megalobrama_amblycephala | Cypriniformes | Xenocyprididae |
| Megalops_atlanticus | Elopiformes | Megalopidae |
| Megalops_cyprinoides | Elopiformes | Megalopidae |
| Melanotaenia_boesemani | Atheriniformes | Melanotaeniidae |
| Micropterus_dolomieu | Centrarchiformes | Centrarchidae |
| Misgurnus_anguillicaudatus | Cypriniformes | Cobitidae |
| Mugil_cephalus | Mugiliformes | Mugilidae |
| Muraenolepis_orangiensis | Gadiformes | Muraenolepididae |
| Myripristis_murdjan | Holocentriformes | Holocentridae |
| Myxocyprinus_asiaticus | Cypriniformes | Catostomidae |
| Nematolebias_whitei | Cyprinodontiformes | Rivulidae |
| Neolamprologus_brichardi | Cichliformes | Cichlidae |
| Nibea_albiflora | Acanthuriformes | Sciaenidae |
| Nothobranchius_furzeri | Cyprinodontiformes | Nothobranchiidae |
| Oncorhynchus_gorbuscha | Salmoniformes | Salmonidae |
| Oncorhynchus_keta | Salmoniformes | Salmonidae |
| Oncorhynchus_kisutch | Salmoniformes | Salmonidae |
| Oncorhynchus_mykiss | Salmoniformes | Salmonidae |
| Oncorhynchus_nerka | Salmoniformes | Salmonidae |
| Oncorhynchus_tshawytscha | Salmoniformes | Salmonidae |
| Onychostoma_macrolepis | Cypriniformes | Cyprinidae |
| Oreochromis_aureus | Cichliformes | Cichlidae |
| Oreochromis_niloticus | Cichliformes | Cichlidae |
| Oryzias_javanicus | Beloniformes | Adrianichthyidae |
| Oryzias_latipes | Beloniformes | Adrianichthyidae |
| Pangasianodon_gigas | Siluriformes | Pangasiidae |
| Pangasianodon_hypophthalmus | Siluriformes | Pangasiidae |
| Parambassis_ranga | Ovalentaria | Ambassidae |
| Perca_flavescens | Perciformes | Percidae |
| Perca_fluviatilis | Perciformes | Percidae |
| Periophthalmus_magnuspinnatus | Gobiiformes | Oxudercidae |
| Plectropomus_leopardus | Perciformes | Epinephelidae |
| Pleuronectes_platessa | Pleuronectiformes | Pleuronectidae |
| Poecilia_reticulata | Cyprinodontiformes | Poeciliidae |
| Pogonophryne_albipinna | Perciformes | Artedidraconidae |
| Pseudochaenichthys_georgianus | Perciformes | Channichthyidae |
| Puntigrus_tetrazona | Cypriniformes | Cyprinidae |
| Pygocentrus_nattereri | Characiformes | Serrasalmidae |
| Salarias_fasciatus | Blenniiformes | Blenniidae |
| Salmo_salar | Salmoniformes | Salmonidae |
| Salvelinus_fontinalis | Salmoniformes | Salmonidae |
| Salvelinus_namaycush | Salmoniformes | Salmonidae |
| Sander_lucioperca | Perciformes | Percidae |
| Scatophagus_argus | Acanthuriformes | Scatophagidae |
| Scleropages_formosus | Osteoglossiformes | Osteoglossidae |
| Scomber_japonicus | Scombriformes | Scombridae |
| Scophthalmus_maximus | Pleuronectiformes | Scophthalmidae |
| Scortum_barcoo | Centrarchiformes | Terapontidae |
| Sebastes_umbrosus | Perciformes | Sebastidae |
| Silurus_meridionalis | Siluriformes | Siluridae |
| Siniperca_chuatsi | Centrarchiformes | Sinipercidae |
| Solea_senegalensis | Pleuronectiformes | Soleidae |
| Solea_solea | Pleuronectiformes | Soleidae |
| Sparus_aurata | Acanthuriformes | Sparidae |
| Sphaeramia_orbicularis | Kurtiformes | Apogonidae |
| Toxotes_jaculatrix | Carangiformes | Toxotidae |
| Synaphobranchus_kaupii | Anguilliformes | Synaphobranchidae |
| Synchiropus_splendidus | Callionymiformes | Callionymidae |
| Syngnathus_acus | Syngnathiformes | Syngnathidae |
| Tachysurus_fulvidraco | Siluriformes | Bagridae |
| Takifugu_bimaculatus | Tetraodontiformes | Tetraodontidae |
| Takifugu_flavidus | Tetraodontiformes | Tetraodontidae |
| Takifugu_rubripes | Tetraodontiformes | Tetraodontidae |
| Thalassophryne_amazonica | Batrachoidiformes | Batrachoididae |
| Thunnus_albacares | Scombriformes | Scombridae |
| Thunnus_maccoyii | Scombriformes | Scombridae |
| Triplophysa_rosa | Cypriniformes | Nemacheilidae |
| Xiphias_gladius | Carangiformes | Xiphiidae |
| Xiphophorus_couchianus | Cyprinodontiformes | Poeciliidae |
| Xiphophorus_hellerii | Cyprinodontiformes | Poeciliidae |
| Xiphophorus_maculatus | Cyprinodontiformes | Poeciliidae |
| Xyrauchen_texanus | Cypriniformes | Catostomidae |
| Xyrichtys_novacula | Labriformes | Labridae |
Filter the Orthogroup list
To keep computational times reasonable I only selected the orthogroups that had less than a 1500 genes.
#Filter orthogroups to contains only the one with all orders
fish<-read_csv("./Datasets/DatasetS0_csv_files/Fish_data.csv") #taxonomic data from FishBase of species
fish<-as.list(fish$Species)
#Function to make final orthogroup list
map(fish,make_orth_table) %>% purrr::reduce(rbind) %>% saveRDS("./RDS/large_fish_tree_all_orders.rds")
orth_list<-readRDS("./RDS/large_fish_tree_all_orders.rds") #Orthogroups with 143 species, containing 2.4 million genes
#Filter out orthogroups with greater than 1500 genes
orth_list %>% summarise(n = n(), .by = "Orthogroup") %>% filter(n < 1500) %>% write_csv("./Datasets/DatasetS0_csv_files/og_list_used_in_analysis.csv")tbl<-read_csv("./Datasets/DatasetS0_csv_files/og_list_used_in_analysis.csv")
kbl(head(tbl,500)) %>% kable_styling() %>%
scroll_box(width = "200px", height = "400px")| Orthogroup | n |
|---|---|
| OG0000068 | 1445 |
| OG0000073 | 1302 |
| OG0000075 | 1352 |
| OG0000076 | 1338 |
| OG0000077 | 1314 |
| OG0000082 | 1285 |
| OG0000084 | 1280 |
| OG0000085 | 1239 |
| OG0000086 | 1249 |
| OG0000087 | 1254 |
| OG0000090 | 1233 |
| OG0000092 | 1219 |
| OG0000094 | 1204 |
| OG0000095 | 1179 |
| OG0000096 | 1211 |
| OG0000097 | 1187 |
| OG0000098 | 1184 |
| OG0000100 | 1183 |
| OG0000101 | 1193 |
| OG0000102 | 1154 |
| OG0000103 | 1151 |
| OG0000104 | 1161 |
| OG0000107 | 1164 |
| OG0000108 | 1154 |
| OG0000109 | 1150 |
| OG0000110 | 1139 |
| OG0000111 | 1161 |
| OG0000114 | 1133 |
| OG0000115 | 1141 |
| OG0000116 | 1144 |
| OG0000117 | 1120 |
| OG0000118 | 1148 |
| OG0000119 | 1090 |
| OG0000120 | 1117 |
| OG0000121 | 1091 |
| OG0000122 | 1093 |
| OG0000127 | 990 |
| OG0000129 | 1036 |
| OG0000130 | 1024 |
| OG0000131 | 1005 |
| OG0000132 | 1042 |
| OG0000133 | 1009 |
| OG0000135 | 1000 |
| OG0000138 | 988 |
| OG0000142 | 982 |
| OG0000143 | 977 |
| OG0000144 | 972 |
| OG0000147 | 966 |
| OG0000149 | 965 |
| OG0000151 | 959 |
| OG0000152 | 955 |
| OG0000153 | 956 |
| OG0000154 | 963 |
| OG0000155 | 957 |
| OG0000156 | 957 |
| OG0000158 | 936 |
| OG0000160 | 947 |
| OG0000161 | 942 |
| OG0000162 | 933 |
| OG0000166 | 931 |
| OG0000168 | 938 |
| OG0000170 | 884 |
| OG0000171 | 933 |
| OG0000172 | 922 |
| OG0000174 | 922 |
| OG0000175 | 916 |
| OG0000177 | 905 |
| OG0000178 | 916 |
| OG0000179 | 906 |
| OG0000180 | 909 |
| OG0000181 | 887 |
| OG0000183 | 890 |
| OG0000186 | 900 |
| OG0000187 | 893 |
| OG0000188 | 901 |
| OG0000189 | 884 |
| OG0000190 | 873 |
| OG0000192 | 877 |
| OG0000193 | 876 |
| OG0000194 | 879 |
| OG0000195 | 878 |
| OG0000198 | 872 |
| OG0000201 | 865 |
| OG0000202 | 873 |
| OG0000203 | 864 |
| OG0000204 | 854 |
| OG0000205 | 860 |
| OG0000207 | 855 |
| OG0000208 | 849 |
| OG0000209 | 846 |
| OG0000210 | 854 |
| OG0000211 | 862 |
| OG0000212 | 849 |
| OG0000214 | 843 |
| OG0000215 | 827 |
| OG0000217 | 835 |
| OG0000218 | 843 |
| OG0000219 | 827 |
| OG0000220 | 828 |
| OG0000221 | 828 |
| OG0000222 | 822 |
| OG0000223 | 829 |
| OG0000224 | 813 |
| OG0000225 | 825 |
| OG0000227 | 820 |
| OG0000229 | 814 |
| OG0000230 | 808 |
| OG0000231 | 815 |
| OG0000232 | 814 |
| OG0000233 | 818 |
| OG0000234 | 821 |
| OG0000235 | 815 |
| OG0000236 | 809 |
| OG0000237 | 810 |
| OG0000240 | 799 |
| OG0000242 | 786 |
| OG0000243 | 791 |
| OG0000245 | 781 |
| OG0000246 | 800 |
| OG0000247 | 756 |
| OG0000248 | 775 |
| OG0000250 | 786 |
| OG0000251 | 797 |
| OG0000252 | 780 |
| OG0000253 | 768 |
| OG0000255 | 769 |
| OG0000257 | 765 |
| OG0000258 | 758 |
| OG0000259 | 761 |
| OG0000261 | 764 |
| OG0000262 | 751 |
| OG0000263 | 748 |
| OG0000264 | 756 |
| OG0000265 | 761 |
| OG0000266 | 757 |
| OG0000268 | 757 |
| OG0000269 | 751 |
| OG0000272 | 752 |
| OG0000273 | 745 |
| OG0000274 | 747 |
| OG0000275 | 747 |
| OG0000276 | 747 |
| OG0000277 | 735 |
| OG0000278 | 742 |
| OG0000280 | 743 |
| OG0000281 | 744 |
| OG0000283 | 746 |
| OG0000284 | 731 |
| OG0000285 | 745 |
| OG0000286 | 711 |
| OG0000287 | 745 |
| OG0000288 | 740 |
| OG0000289 | 734 |
| OG0000292 | 731 |
| OG0000293 | 726 |
| OG0000294 | 724 |
| OG0000295 | 728 |
| OG0000296 | 734 |
| OG0000297 | 727 |
| OG0000300 | 722 |
| OG0000303 | 723 |
| OG0000304 | 714 |
| OG0000306 | 714 |
| OG0000307 | 718 |
| OG0000308 | 726 |
| OG0000310 | 707 |
| OG0000311 | 710 |
| OG0000315 | 708 |
| OG0000317 | 702 |
| OG0000318 | 698 |
| OG0000321 | 706 |
| OG0000322 | 704 |
| OG0000323 | 689 |
| OG0000324 | 692 |
| OG0000325 | 702 |
| OG0000326 | 694 |
| OG0000327 | 678 |
| OG0000328 | 690 |
| OG0000329 | 685 |
| OG0000330 | 692 |
| OG0000331 | 695 |
| OG0000332 | 685 |
| OG0000333 | 686 |
| OG0000334 | 685 |
| OG0000335 | 682 |
| OG0000337 | 683 |
| OG0000338 | 680 |
| OG0000340 | 673 |
| OG0000341 | 684 |
| OG0000342 | 668 |
| OG0000344 | 674 |
| OG0000345 | 690 |
| OG0000347 | 676 |
| OG0000348 | 668 |
| OG0000349 | 671 |
| OG0000350 | 665 |
| OG0000351 | 665 |
| OG0000352 | 673 |
| OG0000353 | 665 |
| OG0000354 | 660 |
| OG0000355 | 667 |
| OG0000357 | 664 |
| OG0000359 | 667 |
| OG0000360 | 652 |
| OG0000362 | 656 |
| OG0000363 | 665 |
| OG0000365 | 652 |
| OG0000366 | 657 |
| OG0000367 | 654 |
| OG0000368 | 656 |
| OG0000369 | 659 |
| OG0000370 | 658 |
| OG0000374 | 655 |
| OG0000375 | 648 |
| OG0000377 | 656 |
| OG0000378 | 659 |
| OG0000380 | 647 |
| OG0000381 | 652 |
| OG0000383 | 638 |
| OG0000384 | 646 |
| OG0000385 | 649 |
| OG0000386 | 649 |
| OG0000388 | 649 |
| OG0000391 | 626 |
| OG0000392 | 641 |
| OG0000393 | 637 |
| OG0000394 | 640 |
| OG0000396 | 634 |
| OG0000398 | 636 |
| OG0000400 | 643 |
| OG0000401 | 633 |
| OG0000402 | 631 |
| OG0000403 | 607 |
| OG0000404 | 633 |
| OG0000405 | 628 |
| OG0000406 | 631 |
| OG0000409 | 629 |
| OG0000410 | 626 |
| OG0000411 | 623 |
| OG0000412 | 620 |
| OG0000413 | 614 |
| OG0000415 | 623 |
| OG0000416 | 625 |
| OG0000417 | 611 |
| OG0000419 | 624 |
| OG0000420 | 616 |
| OG0000422 | 630 |
| OG0000423 | 621 |
| OG0000427 | 617 |
| OG0000428 | 619 |
| OG0000429 | 615 |
| OG0000430 | 621 |
| OG0000432 | 630 |
| OG0000434 | 620 |
| OG0000435 | 619 |
| OG0000438 | 616 |
| OG0000440 | 613 |
| OG0000441 | 612 |
| OG0000442 | 616 |
| OG0000443 | 613 |
| OG0000445 | 610 |
| OG0000446 | 620 |
| OG0000447 | 618 |
| OG0000448 | 607 |
| OG0000449 | 614 |
| OG0000450 | 607 |
| OG0000451 | 603 |
| OG0000452 | 609 |
| OG0000453 | 602 |
| OG0000454 | 613 |
| OG0000455 | 597 |
| OG0000456 | 606 |
| OG0000460 | 604 |
| OG0000461 | 603 |
| OG0000462 | 598 |
| OG0000464 | 602 |
| OG0000465 | 602 |
| OG0000466 | 598 |
| OG0000467 | 600 |
| OG0000468 | 594 |
| OG0000469 | 591 |
| OG0000470 | 592 |
| OG0000471 | 597 |
| OG0000472 | 594 |
| OG0000473 | 597 |
| OG0000474 | 592 |
| OG0000475 | 593 |
| OG0000478 | 590 |
| OG0000479 | 590 |
| OG0000480 | 584 |
| OG0000481 | 586 |
| OG0000484 | 590 |
| OG0000485 | 589 |
| OG0000486 | 581 |
| OG0000487 | 590 |
| OG0000488 | 589 |
| OG0000489 | 584 |
| OG0000490 | 591 |
| OG0000491 | 589 |
| OG0000492 | 593 |
| OG0000493 | 590 |
| OG0000494 | 582 |
| OG0000495 | 582 |
| OG0000496 | 577 |
| OG0000497 | 588 |
| OG0000500 | 582 |
| OG0000502 | 575 |
| OG0000503 | 577 |
| OG0000504 | 585 |
| OG0000505 | 583 |
| OG0000507 | 574 |
| OG0000509 | 576 |
| OG0000510 | 583 |
| OG0000511 | 579 |
| OG0000512 | 575 |
| OG0000513 | 581 |
| OG0000514 | 568 |
| OG0000515 | 579 |
| OG0000516 | 574 |
| OG0000517 | 565 |
| OG0000518 | 582 |
| OG0000519 | 580 |
| OG0000521 | 574 |
| OG0000522 | 562 |
| OG0000523 | 569 |
| OG0000524 | 572 |
| OG0000526 | 569 |
| OG0000527 | 569 |
| OG0000528 | 570 |
| OG0000529 | 571 |
| OG0000530 | 556 |
| OG0000532 | 576 |
| OG0000533 | 567 |
| OG0000534 | 565 |
| OG0000536 | 569 |
| OG0000537 | 564 |
| OG0000538 | 570 |
| OG0000539 | 576 |
| OG0000541 | 561 |
| OG0000542 | 561 |
| OG0000543 | 567 |
| OG0000544 | 560 |
| OG0000545 | 566 |
| OG0000546 | 578 |
| OG0000547 | 562 |
| OG0000548 | 566 |
| OG0000549 | 563 |
| OG0000550 | 562 |
| OG0000551 | 558 |
| OG0000552 | 558 |
| OG0000553 | 560 |
| OG0000554 | 557 |
| OG0000555 | 567 |
| OG0000556 | 548 |
| OG0000557 | 556 |
| OG0000558 | 557 |
| OG0000559 | 565 |
| OG0000560 | 554 |
| OG0000563 | 560 |
| OG0000565 | 563 |
| OG0000566 | 556 |
| OG0000567 | 558 |
| OG0000568 | 561 |
| OG0000569 | 552 |
| OG0000570 | 554 |
| OG0000571 | 556 |
| OG0000572 | 555 |
| OG0000574 | 531 |
| OG0000575 | 561 |
| OG0000576 | 553 |
| OG0000577 | 549 |
| OG0000578 | 553 |
| OG0000579 | 559 |
| OG0000580 | 544 |
| OG0000581 | 563 |
| OG0000582 | 559 |
| OG0000583 | 546 |
| OG0000586 | 547 |
| OG0000587 | 546 |
| OG0000588 | 547 |
| OG0000589 | 553 |
| OG0000591 | 555 |
| OG0000592 | 552 |
| OG0000593 | 562 |
| OG0000594 | 546 |
| OG0000595 | 541 |
| OG0000596 | 547 |
| OG0000597 | 543 |
| OG0000598 | 543 |
| OG0000600 | 532 |
| OG0000602 | 535 |
| OG0000603 | 545 |
| OG0000604 | 542 |
| OG0000605 | 544 |
| OG0000607 | 527 |
| OG0000610 | 531 |
| OG0000613 | 545 |
| OG0000614 | 535 |
| OG0000615 | 543 |
| OG0000616 | 539 |
| OG0000618 | 536 |
| OG0000619 | 524 |
| OG0000622 | 536 |
| OG0000623 | 537 |
| OG0000624 | 530 |
| OG0000625 | 536 |
| OG0000627 | 531 |
| OG0000629 | 535 |
| OG0000630 | 533 |
| OG0000631 | 536 |
| OG0000632 | 537 |
| OG0000634 | 534 |
| OG0000635 | 529 |
| OG0000636 | 511 |
| OG0000638 | 533 |
| OG0000639 | 533 |
| OG0000641 | 533 |
| OG0000642 | 525 |
| OG0000643 | 529 |
| OG0000645 | 525 |
| OG0000646 | 528 |
| OG0000647 | 525 |
| OG0000649 | 526 |
| OG0000650 | 522 |
| OG0000651 | 534 |
| OG0000652 | 523 |
| OG0000653 | 526 |
| OG0000655 | 520 |
| OG0000656 | 518 |
| OG0000657 | 517 |
| OG0000658 | 523 |
| OG0000659 | 513 |
| OG0000660 | 519 |
| OG0000661 | 522 |
| OG0000662 | 524 |
| OG0000663 | 516 |
| OG0000664 | 517 |
| OG0000666 | 515 |
| OG0000669 | 517 |
| OG0000670 | 519 |
| OG0000671 | 506 |
| OG0000672 | 515 |
| OG0000673 | 503 |
| OG0000674 | 507 |
| OG0000677 | 517 |
| OG0000678 | 515 |
| OG0000680 | 509 |
| OG0000682 | 520 |
| OG0000683 | 513 |
| OG0000684 | 511 |
| OG0000685 | 509 |
| OG0000686 | 513 |
| OG0000687 | 514 |
| OG0000688 | 508 |
| OG0000690 | 511 |
| OG0000691 | 507 |
| OG0000692 | 511 |
| OG0000696 | 502 |
| OG0000697 | 504 |
| OG0000699 | 517 |
| OG0000700 | 503 |
| OG0000701 | 506 |
| OG0000702 | 504 |
| OG0000703 | 509 |
| OG0000704 | 504 |
| OG0000705 | 511 |
| OG0000706 | 501 |
| OG0000707 | 510 |
| OG0000708 | 498 |
| OG0000709 | 501 |
| OG0000710 | 502 |
| OG0000711 | 494 |
| OG0000713 | 497 |
| OG0000715 | 505 |
| OG0000717 | 504 |
| OG0000718 | 510 |
| OG0000719 | 497 |
| OG0000721 | 493 |
| OG0000723 | 498 |
| OG0000725 | 497 |
| OG0000727 | 498 |
| OG0000728 | 491 |
| OG0000730 | 500 |
| OG0000731 | 501 |
| OG0000732 | 499 |
| OG0000733 | 496 |
| OG0000734 | 499 |
| OG0000735 | 495 |
| OG0000737 | 496 |
| OG0000738 | 492 |
| OG0000739 | 490 |
| OG0000740 | 492 |
| OG0000741 | 499 |
| OG0000742 | 497 |
| OG0000743 | 497 |
| OG0000744 | 498 |
| OG0000745 | 490 |
| OG0000746 | 495 |
| OG0000747 | 491 |
| OG0000748 | 495 |
Checking the genes and proccesses that were excluded in the analysis
orth_list<-readRDS("./RDS/large_fish_tree_all_orders.rds")
orth_list_over_1.5k<-orth_list %>% summarise(n = n(), .by = "Orthogroup") %>% filter(n > 1500)
#Get the orths in danio to annotate
danio_1.5k<-orth_list %>% filter(sp == "Danio_rerio") %>% filter(Orthogroup %in% orth_list_over_1.5k$Orthogroup) %>% mutate(orths = str_replace_all(orths, "\\.\\d+", ""))
Danio_biomart<-read_csv("./Datasets/DatasetS0_csv_files/Danio_biomart.csv")
danio_1.5k_annot<-left_join(danio_1.5k,Danio_biomart %>% dplyr::rename(orths = `Gene stable ID`), by = "orths")
danio_1.5k_annot %>% write_csv("./Datasets/DatasetS0_csv_files/danio_1.5k_annot.csv")tbl<-read_csv("./Datasets/DatasetS0_csv_files/danio_1.5k_annot.csv")
kbl(head(tbl,1000)) %>% kable_styling() %>%
scroll_box(width = "600px", height = "400px")| Orthogroup | orths | sp | Order | Class | Gene stable ID version | Transcript stable ID | Transcript stable ID version | Gene name | Gene description | Protein stable ID | Protein stable ID version |
|---|---|---|---|---|---|---|---|---|---|---|---|
| OG0000000 | ENSDARG00000038352 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000038352.9 | ENSDART00000067775 | ENSDART00000067775.7 | slc27a1b | solute carrier family 27 member 1b [Source:ZFIN;Acc:ZDB-GENE-061013-672] | ENSDARP00000067774 | ENSDARP00000067774.6 |
| OG0000000 | ENSDARG00000039900 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000039900.8 | ENSDART00000152277 | ENSDART00000152277.3 | si:ch73-168d20.1 | si:ch73-168d20.1 [Source:ZFIN;Acc:ZDB-GENE-121214-44] | ENSDARP00000126848 | ENSDARP00000126848.1 |
| OG0000000 | ENSDARG00000039900 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000039900.8 | ENSDART00000179776 | ENSDART00000179776.1 | si:ch73-168d20.1 | si:ch73-168d20.1 [Source:ZFIN;Acc:ZDB-GENE-121214-44] | ENSDARP00000145114 | ENSDARP00000145114.1 |
| OG0000000 | ENSDARG00000043792 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000043792.6 | ENSDART00000139539 | ENSDART00000139539.4 | si:rp71-7l19.2 | si:rp71-7l19.2 [Source:ZFIN;Acc:ZDB-GENE-081103-31] | ENSDARP00000114570 | ENSDARP00000114570.2 |
| OG0000000 | ENSDARG00000043792 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000043792.6 | ENSDART00000184429 | ENSDART00000184429.1 | si:rp71-7l19.2 | si:rp71-7l19.2 [Source:ZFIN;Acc:ZDB-GENE-081103-31] | ENSDARP00000146590 | ENSDARP00000146590.1 |
| OG0000000 | ENSDARG00000068127 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000068127.7 | ENSDART00000097668 | ENSDART00000097668.5 | si:ch211-194e1.7 | si:ch211-194e1.7 [Source:ZFIN;Acc:ZDB-GENE-081105-104] | ENSDARP00000088438 | ENSDARP00000088438.5 |
| OG0000000 | ENSDARG00000068127 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000068127.7 | ENSDART00000138767 | ENSDART00000138767.3 | si:ch211-194e1.7 | si:ch211-194e1.7 [Source:ZFIN;Acc:ZDB-GENE-081105-104] | ENSDARP00000117445 | ENSDARP00000117445.2 |
| OG0000000 | ENSDARG00000068621 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000068621.6 | ENSDART00000152490 | ENSDART00000152490.3 | si:ch211-181d7.3 | si:ch211-181d7.3 [Source:ZFIN;Acc:ZDB-GENE-121214-30] | ENSDARP00000126823 | ENSDARP00000126823.1 |
| OG0000000 | ENSDARG00000068621 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000068621.6 | ENSDART00000180426 | ENSDART00000180426.1 | si:ch211-181d7.3 | si:ch211-181d7.3 [Source:ZFIN;Acc:ZDB-GENE-121214-30] | ENSDARP00000156818 | ENSDARP00000156818.1 |
| OG0000000 | ENSDARG00000068621 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000068621.6 | ENSDART00000099313 | ENSDART00000099313.5 | si:ch211-181d7.3 | si:ch211-181d7.3 [Source:ZFIN;Acc:ZDB-GENE-121214-30] | ENSDARP00000090086 | ENSDARP00000090086.3 |
| OG0000000 | ENSDARG00000069264 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000069264.6 | ENSDART00000145381 | ENSDART00000145381.3 | si:ch211-196h16.5 | si:ch211-196h16.5 [Source:ZFIN;Acc:ZDB-GENE-081029-8] | ENSDARP00000121896 | ENSDARP00000121896.2 |
| OG0000000 | ENSDARG00000069264 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000069264.6 | ENSDART00000193654 | ENSDART00000193654.1 | si:ch211-196h16.5 | si:ch211-196h16.5 [Source:ZFIN;Acc:ZDB-GENE-081029-8] | ENSDARP00000156499 | ENSDARP00000156499.1 |
| OG0000000 | ENSDARG00000069627 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000069627.7 | ENSDART00000133606 | ENSDART00000133606.3 | si:ch211-255g12.8 | si:ch211-255g12.8 [Source:ZFIN;Acc:ZDB-GENE-081104-39] | ENSDARP00000123545 | ENSDARP00000123545.2 |
| OG0000000 | ENSDARG00000074653 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000074653.6 | ENSDART00000138143 | ENSDART00000138143.3 | si:ch211-233m11.1 | si:ch211-233m11.1 [Source:ZFIN;Acc:ZDB-GENE-081028-16] | ENSDARP00000118436 | ENSDARP00000118436.2 |
| OG0000000 | ENSDARG00000076819 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000076819.7 | ENSDART00000136952 | ENSDART00000136952.3 | nlrc8 | NLR family CARD domain containing 8 [Source:ZFIN;Acc:ZDB-GENE-070912-363] | ENSDARP00000116140 | ENSDARP00000116140.2 |
| OG0000000 | ENSDARG00000077488 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000077488.5 | ENSDART00000150438 | ENSDART00000150438.3 | si:ch73-289h5.4 | si:ch73-289h5.4 [Source:ZFIN;Acc:ZDB-GENE-110913-10] | ENSDARP00000125305 | ENSDARP00000125305.1 |
| OG0000000 | ENSDARG00000077488 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000077488.5 | ENSDART00000113296 | ENSDART00000113296.4 | si:ch73-289h5.4 | si:ch73-289h5.4 [Source:ZFIN;Acc:ZDB-GENE-110913-10] | ENSDARP00000098532 | ENSDARP00000098532.3 |
| OG0000000 | ENSDARG00000077488 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000077488.5 | ENSDART00000191574 | ENSDART00000191574.1 | si:ch73-289h5.4 | si:ch73-289h5.4 [Source:ZFIN;Acc:ZDB-GENE-110913-10] | ENSDARP00000146536 | ENSDARP00000146536.1 |
| OG0000000 | ENSDARG00000077673 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000077673.6 | ENSDART00000146246 | ENSDART00000146246.3 | nlrp16 | NACHT, LRR and PYD domains-containing protein 16 [Source:ZFIN;Acc:ZDB-GENE-030131-8582] | ENSDARP00000115653 | ENSDARP00000115653.2 |
| OG0000000 | ENSDARG00000077673 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000077673.6 | ENSDART00000099821 | ENSDART00000099821.5 | nlrp16 | NACHT, LRR and PYD domains-containing protein 16 [Source:ZFIN;Acc:ZDB-GENE-030131-8582] | ENSDARP00000090594 | ENSDARP00000090594.4 |
| OG0000000 | ENSDARG00000077697 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000077697.6 | ENSDART00000160587 | ENSDART00000160587.2 | si:dkey-105i14.1 | si:dkey-105i14.1 [Source:ZFIN;Acc:ZDB-GENE-081103-64] | ENSDARP00000131074 | ENSDARP00000131074.1 |
| OG0000000 | ENSDARG00000077697 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000077697.6 | ENSDART00000104921 | ENSDART00000104921.4 | si:dkey-105i14.1 | si:dkey-105i14.1 [Source:ZFIN;Acc:ZDB-GENE-081103-64] | ENSDARP00000095691 | ENSDARP00000095691.3 |
| OG0000000 | ENSDARG00000078002 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000078002.6 | ENSDART00000141573 | ENSDART00000141573.4 | si:dkey-13n15.11 | si:dkey-13n15.11 [Source:ZFIN;Acc:ZDB-GENE-070705-295] | ENSDARP00000119348 | ENSDARP00000119348.2 |
| OG0000000 | ENSDARG00000078101 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000078101.6 | ENSDART00000141496 | ENSDART00000141496.3 | nlrc9 | NLR family CARD domain containing 9 [Source:ZFIN;Acc:ZDB-GENE-070912-362] | ENSDARP00000116893 | ENSDARP00000116893.2 |
| OG0000000 | ENSDARG00000078101 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000078101.6 | ENSDART00000183327 | ENSDART00000183327.1 | nlrc9 | NLR family CARD domain containing 9 [Source:ZFIN;Acc:ZDB-GENE-070912-362] | ENSDARP00000150263 | ENSDARP00000150263.1 |
| OG0000000 | ENSDARG00000078101 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000078101.6 | ENSDART00000170395 | ENSDART00000170395.2 | nlrc9 | NLR family CARD domain containing 9 [Source:ZFIN;Acc:ZDB-GENE-070912-362] | ENSDARP00000138733 | ENSDARP00000138733.2 |
| OG0000000 | ENSDARG00000078101 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000078101.6 | ENSDART00000188847 | ENSDART00000188847.1 | nlrc9 | NLR family CARD domain containing 9 [Source:ZFIN;Acc:ZDB-GENE-070912-362] | ENSDARP00000156737 | ENSDARP00000156737.1 |
| OG0000000 | ENSDARG00000078101 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000078101.6 | ENSDART00000099437 | ENSDART00000099437.5 | nlrc9 | NLR family CARD domain containing 9 [Source:ZFIN;Acc:ZDB-GENE-070912-362] | ENSDARP00000090210 | ENSDARP00000090210.5 |
| OG0000000 | ENSDARG00000078246 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000078246.8 | ENSDART00000156678 | ENSDART00000156678.3 | si:ch211-114l13.4 | si:ch211-114l13.4 [Source:ZFIN;Acc:ZDB-GENE-070424-113] | ENSDARP00000127840 | ENSDARP00000127840.3 |
| OG0000000 | ENSDARG00000078246 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000078246.8 | ENSDART00000115190 | ENSDART00000115190.6 | si:ch211-114l13.4 | si:ch211-114l13.4 [Source:ZFIN;Acc:ZDB-GENE-070424-113] | ENSDARP00000103447 | ENSDARP00000103447.4 |
| OG0000000 | ENSDARG00000078912 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000078912.5 | ENSDART00000152152 | ENSDART00000152152.2 | si:ch73-24k9.2 | si:ch73-24k9.2 [Source:ZFIN;Acc:ZDB-GENE-121214-29] | ENSDARP00000126765 | ENSDARP00000126765.1 |
| OG0000000 | ENSDARG00000079456 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000079456.6 | ENSDART00000097530 | ENSDART00000097530.5 | si:ch211-149a19.3 | si:ch211-149a19.3 [Source:ZFIN;Acc:ZDB-GENE-081104-128] | ENSDARP00000088301 | ENSDARP00000088301.5 |
| OG0000000 | ENSDARG00000079456 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000079456.6 | ENSDART00000192739 | ENSDART00000192739.1 | si:ch211-149a19.3 | si:ch211-149a19.3 [Source:ZFIN;Acc:ZDB-GENE-081104-128] | ENSDARP00000157343 | ENSDARP00000157343.1 |
| OG0000000 | ENSDARG00000079456 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000079456.6 | ENSDART00000144113 | ENSDART00000144113.4 | si:ch211-149a19.3 | si:ch211-149a19.3 [Source:ZFIN;Acc:ZDB-GENE-081104-128] | ENSDARP00000118398 | ENSDARP00000118398.2 |
| OG0000000 | ENSDARG00000079456 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000079456.6 | ENSDART00000186176 | ENSDART00000186176.1 | si:ch211-149a19.3 | si:ch211-149a19.3 [Source:ZFIN;Acc:ZDB-GENE-081104-128] | ENSDARP00000156814 | ENSDARP00000156814.1 |
| OG0000000 | ENSDARG00000079456 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000079456.6 | ENSDART00000181795 | ENSDART00000181795.1 | si:ch211-149a19.3 | si:ch211-149a19.3 [Source:ZFIN;Acc:ZDB-GENE-081104-128] | ENSDARP00000152938 | ENSDARP00000152938.1 |
| OG0000000 | ENSDARG00000086256 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000086256.5 | ENSDART00000128105 | ENSDART00000128105.3 | si:ch211-236p5.2 | si:ch211-236p5.2 [Source:ZFIN;Acc:ZDB-GENE-081028-33] | ENSDARP00000107037 | ENSDARP00000107037.3 |
| OG0000000 | ENSDARG00000086256 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000086256.5 | ENSDART00000145668 | ENSDART00000145668.4 | si:ch211-236p5.2 | si:ch211-236p5.2 [Source:ZFIN;Acc:ZDB-GENE-081028-33] | ENSDARP00000123511 | ENSDARP00000123511.2 |
| OG0000000 | ENSDARG00000086418 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000086418.5 | ENSDART00000152006 | ENSDART00000152006.3 | si:ch211-236p5.3 | si:ch211-236p5.3 [Source:ZFIN;Acc:ZDB-GENE-081028-31] | ENSDARP00000126432 | ENSDARP00000126432.1 |
| OG0000000 | ENSDARG00000086418 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000086418.5 | ENSDART00000125728 | ENSDART00000125728.3 | si:ch211-236p5.3 | si:ch211-236p5.3 [Source:ZFIN;Acc:ZDB-GENE-081028-31] | ENSDARP00000104999 | ENSDARP00000104999.1 |
| OG0000000 | ENSDARG00000086576 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000086576.4 | ENSDART00000105992 | ENSDART00000105992.6 | si:cabz01069012.2 | si:cabz01069012.2 [Source:ZFIN;Acc:ZDB-GENE-161017-152] | ENSDARP00000096770 | ENSDARP00000096770.5 |
| OG0000000 | ENSDARG00000086576 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000086576.4 | ENSDART00000112802 | ENSDART00000112802.4 | si:cabz01069012.2 | si:cabz01069012.2 [Source:ZFIN;Acc:ZDB-GENE-161017-152] | ENSDARP00000102562 | ENSDARP00000102562.4 |
| OG0000000 | ENSDARG00000086703 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000086703.5 | ENSDART00000138617 | ENSDART00000138617.3 | si:dkey-126g1.7 | si:dkey-126g1.7 [Source:ZFIN;Acc:ZDB-GENE-090313-181] | ENSDARP00000126888 | ENSDARP00000126888.1 |
| OG0000000 | ENSDARG00000087251 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000087251.4 | ENSDART00000125772 | ENSDART00000125772.3 | si:ch73-50f9.4 | si:ch73-50f9.4 [Source:ZFIN;Acc:ZDB-GENE-131122-9] | ENSDARP00000106753 | ENSDARP00000106753.3 |
| OG0000000 | ENSDARG00000087251 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000087251.4 | ENSDART00000153653 | ENSDART00000153653.3 | si:ch73-50f9.4 | si:ch73-50f9.4 [Source:ZFIN;Acc:ZDB-GENE-131122-9] | ENSDARP00000127767 | ENSDARP00000127767.1 |
| OG0000000 | ENSDARG00000087532 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000087532.6 | ENSDART00000144492 | ENSDART00000144492.4 | si:ch211-278p9.1 | si:ch211-278p9.1 [Source:ZFIN;Acc:ZDB-GENE-081028-46] | ENSDARP00000117405 | ENSDARP00000117405.2 |
| OG0000000 | ENSDARG00000087532 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000087532.6 | ENSDART00000172035 | ENSDART00000172035.2 | si:ch211-278p9.1 | si:ch211-278p9.1 [Source:ZFIN;Acc:ZDB-GENE-081028-46] | ENSDARP00000130017 | ENSDARP00000130017.2 |
| OG0000000 | ENSDARG00000087532 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000087532.6 | ENSDART00000191770 | ENSDART00000191770.1 | si:ch211-278p9.1 | si:ch211-278p9.1 [Source:ZFIN;Acc:ZDB-GENE-081028-46] | ENSDARP00000150709 | ENSDARP00000150709.1 |
| OG0000000 | ENSDARG00000088082 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000088082.6 | ENSDART00000133110 | ENSDART00000133110.4 | si:ch211-214c20.1 | si:ch211-214c20.1 [Source:ZFIN;Acc:ZDB-GENE-081103-49] | ENSDARP00000116259 | ENSDARP00000116259.2 |
| OG0000000 | ENSDARG00000088274 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000088274.4 | ENSDART00000152596 | ENSDART00000152596.2 | si:ch211-181d7.1 | si:ch211-181d7.1 [Source:ZFIN;Acc:ZDB-GENE-121214-14] | ENSDARP00000126764 | ENSDARP00000126764.1 |
| OG0000000 | ENSDARG00000088274 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000088274.4 | ENSDART00000130902 | ENSDART00000130902.3 | si:ch211-181d7.1 | si:ch211-181d7.1 [Source:ZFIN;Acc:ZDB-GENE-121214-14] | ENSDARP00000112248 | ENSDARP00000112248.3 |
| OG0000000 | ENSDARG00000088689 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000088689.4 | ENSDART00000152090 | ENSDART00000152090.3 | si:ch211-201o1.1 | si:ch211-201o1.1 [Source:ZFIN;Acc:ZDB-GENE-120709-60] | ENSDARP00000126550 | ENSDARP00000126550.2 |
| OG0000000 | ENSDARG00000089582 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000089582.6 | ENSDART00000137564 | ENSDART00000137564.4 | si:dkey-265e15.2 | si:dkey-265e15.2 [Source:ZFIN;Acc:ZDB-GENE-081103-3] | ENSDARP00000123009 | ENSDARP00000123009.2 |
| OG0000000 | ENSDARG00000089582 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000089582.6 | ENSDART00000151833 | ENSDART00000151833.2 | si:dkey-265e15.2 | si:dkey-265e15.2 [Source:ZFIN;Acc:ZDB-GENE-081103-3] | ENSDARP00000126395 | ENSDARP00000126395.1 |
| OG0000000 | ENSDARG00000089582 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000089582.6 | ENSDART00000168249 | ENSDART00000168249.2 | si:dkey-265e15.2 | si:dkey-265e15.2 [Source:ZFIN;Acc:ZDB-GENE-081103-3] | ENSDARP00000136164 | ENSDARP00000136164.1 |
| OG0000000 | ENSDARG00000089934 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000089934.4 | ENSDART00000150259 | ENSDART00000150259.2 | si:ch211-64i20.3 | si:ch211-64i20.3 [Source:ZFIN;Acc:ZDB-GENE-110913-55] | ENSDARP00000125117 | ENSDARP00000125117.1 |
| OG0000000 | ENSDARG00000090160 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000090160.7 | ENSDART00000190248 | ENSDART00000190248.1 | zgc:173709 | zgc:173709 [Source:ZFIN;Acc:ZDB-GENE-080208-5] | ENSDARP00000146475 | ENSDARP00000146475.1 |
| OG0000000 | ENSDARG00000090160 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000090160.7 | ENSDART00000150746 | ENSDART00000150746.3 | zgc:173709 | zgc:173709 [Source:ZFIN;Acc:ZDB-GENE-080208-5] | ENSDARP00000125566 | ENSDARP00000125566.3 |
| OG0000000 | ENSDARG00000090160 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000090160.7 | ENSDART00000185921 | ENSDART00000185921.1 | zgc:173709 | zgc:173709 [Source:ZFIN;Acc:ZDB-GENE-080208-5] | ENSDARP00000156631 | ENSDARP00000156631.1 |
| OG0000000 | ENSDARG00000090160 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000090160.7 | ENSDART00000183761 | ENSDART00000183761.1 | zgc:173709 | zgc:173709 [Source:ZFIN;Acc:ZDB-GENE-080208-5] | ENSDARP00000154589 | ENSDARP00000154589.1 |
| OG0000000 | ENSDARG00000090160 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000090160.7 | ENSDART00000190750 | ENSDART00000190750.1 | zgc:173709 | zgc:173709 [Source:ZFIN;Acc:ZDB-GENE-080208-5] | ENSDARP00000153506 | ENSDARP00000153506.1 |
| OG0000000 | ENSDARG00000090160 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000090160.7 | ENSDART00000157941 | ENSDART00000157941.2 | zgc:173709 | zgc:173709 [Source:ZFIN;Acc:ZDB-GENE-080208-5] | ENSDARP00000131578 | ENSDARP00000131578.1 |
| OG0000000 | ENSDARG00000090193 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000090193.4 | ENSDART00000131246 | ENSDART00000131246.3 | si:ch73-286h23.4 | si:ch73-286h23.4 [Source:ZFIN;Acc:ZDB-GENE-070705-237] | ENSDARP00000114045 | ENSDARP00000114045.2 |
| OG0000000 | ENSDARG00000090946 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000090946.4 | ENSDART00000152387 | ENSDART00000152387.3 | si:zfos-364h11.2 | si:zfos-364h11.2 [Source:ZFIN;Acc:ZDB-GENE-120703-46] | ENSDARP00000127060 | ENSDARP00000127060.1 |
| OG0000000 | ENSDARG00000090946 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000090946.4 | ENSDART00000170204 | ENSDART00000170204.2 | si:zfos-364h11.2 | si:zfos-364h11.2 [Source:ZFIN;Acc:ZDB-GENE-120703-46] | ENSDARP00000136278 | ENSDARP00000136278.2 |
| OG0000000 | ENSDARG00000090946 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000090946.4 | ENSDART00000113401 | ENSDART00000113401.4 | si:zfos-364h11.2 | si:zfos-364h11.2 [Source:ZFIN;Acc:ZDB-GENE-120703-46] | ENSDARP00000101267 | ENSDARP00000101267.4 |
| OG0000000 | ENSDARG00000091235 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000091235.3 | ENSDART00000108542 | ENSDART00000108542.4 | CABZ01015525.1 | NA | ENSDARP00000099153 | ENSDARP00000099153.4 |
| OG0000000 | ENSDARG00000091320 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000091320.4 | ENSDART00000144759 | ENSDART00000144759.3 | nlrc6 | NLR family CARD domain containing 6 [Source:ZFIN;Acc:ZDB-GENE-060421-8264] | ENSDARP00000122806 | ENSDARP00000122806.1 |
| OG0000000 | ENSDARG00000091320 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000091320.4 | ENSDART00000129831 | ENSDART00000129831.2 | nlrc6 | NLR family CARD domain containing 6 [Source:ZFIN;Acc:ZDB-GENE-060421-8264] | ENSDARP00000104685 | ENSDARP00000104685.1 |
| OG0000000 | ENSDARG00000091847 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000091847.4 | ENSDART00000154379 | ENSDART00000154379.2 | si:ch211-181d7.1 | si:ch211-181d7.1 [Source:ZFIN;Acc:ZDB-GENE-121214-14] | ENSDARP00000129380 | ENSDARP00000129380.1 |
| OG0000000 | ENSDARG00000091912 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000091912.4 | ENSDART00000160436 | ENSDART00000160436.2 | si:ch211-15j1.5 | si:ch211-15j1.5 [Source:ZFIN;Acc:ZDB-GENE-081031-11] | ENSDARP00000140427 | ENSDARP00000140427.2 |
| OG0000000 | ENSDARG00000091912 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000091912.4 | ENSDART00000146788 | ENSDART00000146788.3 | si:ch211-15j1.5 | si:ch211-15j1.5 [Source:ZFIN;Acc:ZDB-GENE-081031-11] | ENSDARP00000123539 | ENSDARP00000123539.2 |
| OG0000000 | ENSDARG00000092025 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000092025.3 | ENSDART00000144678 | ENSDART00000144678.3 | nlrc8 | NLR family CARD domain containing 8 [Source:ZFIN;Acc:ZDB-GENE-070912-363] | ENSDARP00000122925 | ENSDARP00000122925.2 |
| OG0000000 | ENSDARG00000092025 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000092025.3 | ENSDART00000099290 | ENSDART00000099290.5 | nlrc8 | NLR family CARD domain containing 8 [Source:ZFIN;Acc:ZDB-GENE-070912-363] | ENSDARP00000090064 | ENSDARP00000090064.5 |
| OG0000000 | ENSDARG00000092025 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000092025.3 | ENSDART00000170014 | ENSDART00000170014.2 | nlrc8 | NLR family CARD domain containing 8 [Source:ZFIN;Acc:ZDB-GENE-070912-363] | ENSDARP00000137228 | ENSDARP00000137228.2 |
| OG0000000 | ENSDARG00000092070 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000092070.5 | ENSDART00000137836 | ENSDART00000137836.5 | si:ch211-15j1.3 | si:ch211-15j1.3 [Source:ZFIN;Acc:ZDB-GENE-081031-24] | ENSDARP00000116247 | ENSDARP00000116247.3 |
| OG0000000 | ENSDARG00000092294 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000092294.5 | ENSDART00000140536 | ENSDART00000140536.4 | si:dkey-222h21.6 | si:dkey-222h21.6 [Source:ZFIN;Acc:ZDB-GENE-081031-15] | ENSDARP00000120373 | ENSDARP00000120373.3 |
| OG0000000 | ENSDARG00000092500 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000092500.4 | ENSDART00000140754 | ENSDART00000140754.4 | si:dkey-222h21.1 | si:dkey-222h21.1 [Source:ZFIN;Acc:ZDB-GENE-081031-21] | ENSDARP00000118953 | ENSDARP00000118953.2 |
| OG0000000 | ENSDARG00000092604 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000092604.5 | ENSDART00000180887 | ENSDART00000180887.1 | si:ch211-15j1.4 | si:ch211-15j1.4 [Source:ZFIN;Acc:ZDB-GENE-081031-6] | ENSDARP00000151675 | ENSDARP00000151675.1 |
| OG0000000 | ENSDARG00000092604 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000092604.5 | ENSDART00000134826 | ENSDART00000134826.5 | si:ch211-15j1.4 | si:ch211-15j1.4 [Source:ZFIN;Acc:ZDB-GENE-081031-6] | ENSDARP00000115410 | ENSDARP00000115410.3 |
| OG0000000 | ENSDARG00000092759 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000092759.4 | ENSDART00000152915 | ENSDART00000152915.3 | si:dkey-61p9.9 | si:dkey-61p9.9 [Source:ZFIN;Acc:ZDB-GENE-041210-240] | ENSDARP00000127397 | ENSDARP00000127397.1 |
| OG0000000 | ENSDARG00000092759 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000092759.4 | ENSDART00000131964 | ENSDART00000131964.3 | si:dkey-61p9.9 | si:dkey-61p9.9 [Source:ZFIN;Acc:ZDB-GENE-041210-240] | ENSDARP00000114336 | ENSDARP00000114336.2 |
| OG0000000 | ENSDARG00000092941 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000092941.5 | ENSDART00000145743 | ENSDART00000145743.5 | si:dkey-222h21.3 | si:dkey-222h21.3 [Source:ZFIN;Acc:ZDB-GENE-081031-31] | ENSDARP00000117380 | ENSDARP00000117380.4 |
| OG0000000 | ENSDARG00000092984 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000092984.5 | ENSDART00000146252 | ENSDART00000146252.4 | si:dkey-222h21.11 | si:dkey-222h21.11 [Source:ZFIN;Acc:ZDB-GENE-081031-32] | ENSDARP00000122895 | ENSDARP00000122895.3 |
| OG0000000 | ENSDARG00000093177 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000093177.4 | ENSDART00000144784 | ENSDART00000144784.4 | si:ch211-15j1.1 | si:ch211-15j1.1 [Source:ZFIN;Acc:ZDB-GENE-081031-25] | ENSDARP00000113434 | ENSDARP00000113434.3 |
| OG0000000 | ENSDARG00000093323 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000093323.4 | ENSDART00000146316 | ENSDART00000146316.3 | si:ch211-114l13.1 | si:ch211-114l13.1 [Source:ZFIN;Acc:ZDB-GENE-070424-109] | ENSDARP00000125829 | ENSDARP00000125829.1 |
| OG0000000 | ENSDARG00000093323 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000093323.4 | ENSDART00000144190 | ENSDART00000144190.4 | si:ch211-114l13.1 | si:ch211-114l13.1 [Source:ZFIN;Acc:ZDB-GENE-070424-109] | ENSDARP00000113293 | ENSDARP00000113293.2 |
| OG0000000 | ENSDARG00000093532 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000093532.5 | ENSDART00000141202 | ENSDART00000141202.3 | si:dkey-230i18.2 | si:dkey-230i18.2 [Source:ZFIN;Acc:ZDB-GENE-070912-457] | ENSDARP00000116559 | ENSDARP00000116559.2 |
| OG0000000 | ENSDARG00000093532 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000093532.5 | ENSDART00000169351 | ENSDART00000169351.2 | si:dkey-230i18.2 | si:dkey-230i18.2 [Source:ZFIN;Acc:ZDB-GENE-070912-457] | ENSDARP00000137185 | ENSDARP00000137185.2 |
| OG0000000 | ENSDARG00000093680 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000093680.3 | ENSDART00000142834 | ENSDART00000142834.3 | si:dkey-218h11.6 | si:dkey-218h11.6 [Source:ZFIN;Acc:ZDB-GENE-070424-225] | ENSDARP00000118730 | ENSDARP00000118730.2 |
| OG0000000 | ENSDARG00000093761 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000093761.4 | ENSDART00000141422 | ENSDART00000141422.3 | si:ch211-250k18.7 | si:ch211-250k18.7 [Source:ZFIN;Acc:ZDB-GENE-070912-246] | ENSDARP00000113623 | ENSDARP00000113623.2 |
| OG0000000 | ENSDARG00000093761 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000093761.4 | ENSDART00000193522 | ENSDART00000193522.1 | si:ch211-250k18.7 | si:ch211-250k18.7 [Source:ZFIN;Acc:ZDB-GENE-070912-246] | ENSDARP00000150700 | ENSDARP00000150700.1 |
| OG0000000 | ENSDARG00000093761 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000093761.4 | ENSDART00000193694 | ENSDART00000193694.1 | si:ch211-250k18.7 | si:ch211-250k18.7 [Source:ZFIN;Acc:ZDB-GENE-070912-246] | ENSDARP00000157144 | ENSDARP00000157144.1 |
| OG0000000 | ENSDARG00000093975 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000093975.3 | ENSDART00000132423 | ENSDART00000132423.3 | si:dkey-222h21.9 | si:dkey-222h21.9 [Source:ZFIN;Acc:ZDB-GENE-081031-10] | ENSDARP00000119246 | ENSDARP00000119246.2 |
| OG0000000 | ENSDARG00000094067 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000094067.5 | ENSDART00000136164 | ENSDART00000136164.3 | si:dkey-121n8.7 | si:dkey-121n8.7 [Source:ZFIN;Acc:ZDB-GENE-070912-366] | ENSDARP00000115461 | ENSDARP00000115461.2 |
| OG0000000 | ENSDARG00000094067 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000094067.5 | ENSDART00000190445 | ENSDART00000190445.1 | si:dkey-121n8.7 | si:dkey-121n8.7 [Source:ZFIN;Acc:ZDB-GENE-070912-366] | ENSDARP00000151385 | ENSDARP00000151385.1 |
| OG0000000 | ENSDARG00000094067 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000094067.5 | ENSDART00000189776 | ENSDART00000189776.1 | si:dkey-121n8.7 | si:dkey-121n8.7 [Source:ZFIN;Acc:ZDB-GENE-070912-366] | ENSDARP00000152505 | ENSDARP00000152505.1 |
| OG0000000 | ENSDARG00000094098 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000094098.6 | ENSDART00000141987 | ENSDART00000141987.3 | si:ch211-278p9.3 | si:ch211-278p9.3 [Source:ZFIN;Acc:ZDB-GENE-081028-38] | ENSDARP00000117718 | ENSDARP00000117718.2 |
| OG0000000 | ENSDARG00000094098 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000094098.6 | ENSDART00000186907 | ENSDART00000186907.1 | si:ch211-278p9.3 | si:ch211-278p9.3 [Source:ZFIN;Acc:ZDB-GENE-081028-38] | ENSDARP00000149010 | ENSDARP00000149010.1 |
| OG0000000 | ENSDARG00000094246 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000094246.4 | ENSDART00000142285 | ENSDART00000142285.4 | si:dkey-222h21.10 | si:dkey-222h21.10 [Source:ZFIN;Acc:ZDB-GENE-081031-22] | ENSDARP00000121660 | ENSDARP00000121660.3 |
| OG0000000 | ENSDARG00000094246 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000094246.4 | ENSDART00000138007 | ENSDART00000138007.3 | si:dkey-222h21.10 | si:dkey-222h21.10 [Source:ZFIN;Acc:ZDB-GENE-081031-22] | ENSDARP00000119731 | ENSDARP00000119731.3 |
| OG0000000 | ENSDARG00000094297 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000094297.5 | ENSDART00000147678 | ENSDART00000147678.4 | si:dkey-222h21.2 | si:dkey-222h21.2 [Source:ZFIN;Acc:ZDB-GENE-081031-20] | ENSDARP00000117616 | ENSDARP00000117616.3 |
| OG0000000 | ENSDARG00000094344 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000094344.4 | ENSDART00000110453 | ENSDART00000110453.6 | si:dkey-222h21.8 | si:dkey-222h21.8 [Source:ZFIN;Acc:ZDB-GENE-081031-103] | ENSDARP00000099801 | ENSDARP00000099801.4 |
| OG0000000 | ENSDARG00000094346 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000094346.5 | ENSDART00000141678 | ENSDART00000141678.4 | si:ch211-114l13.13 | si:ch211-114l13.13 [Source:ZFIN;Acc:ZDB-GENE-120215-237] | ENSDARP00000118555 | ENSDARP00000118555.3 |
| OG0000000 | ENSDARG00000094350 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000094350.3 | ENSDART00000138525 | ENSDART00000138525.3 | si:ch211-187g4.1 | si:ch211-187g4.1 [Source:ZFIN;Acc:ZDB-GENE-070912-161] | ENSDARP00000120488 | ENSDARP00000120488.2 |
| OG0000000 | ENSDARG00000094608 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000094608.4 | ENSDART00000138467 | ENSDART00000138467.4 | si:dkey-222h21.10 | si:dkey-222h21.10 [Source:ZFIN;Acc:ZDB-GENE-081031-22] | ENSDARP00000120603 | ENSDARP00000120603.2 |
| OG0000000 | ENSDARG00000094782 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000094782.4 | ENSDART00000140020 | ENSDART00000140020.3 | si:ch211-196h16.4 | si:ch211-196h16.4 [Source:ZFIN;Acc:ZDB-GENE-081029-1] | ENSDARP00000123041 | ENSDARP00000123041.2 |
| OG0000000 | ENSDARG00000094782 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000094782.4 | ENSDART00000145070 | ENSDART00000145070.3 | si:ch211-196h16.4 | si:ch211-196h16.4 [Source:ZFIN;Acc:ZDB-GENE-081029-1] | ENSDARP00000120438 | ENSDARP00000120438.3 |
| OG0000000 | ENSDARG00000095106 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000095106.5 | ENSDART00000136778 | ENSDART00000136778.3 | si:dkey-28k24.2 | si:dkey-28k24.2 [Source:ZFIN;Acc:ZDB-GENE-121213-4] | ENSDARP00000114741 | ENSDARP00000114741.2 |
| OG0000000 | ENSDARG00000095106 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000095106.5 | ENSDART00000190931 | ENSDART00000190931.1 | si:dkey-28k24.2 | si:dkey-28k24.2 [Source:ZFIN;Acc:ZDB-GENE-121213-4] | ENSDARP00000154549 | ENSDARP00000154549.1 |
| OG0000000 | ENSDARG00000095274 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000095274.4 | ENSDART00000144941 | ENSDART00000144941.3 | si:ch211-278p9.2 | si:ch211-278p9.2 [Source:ZFIN;Acc:ZDB-GENE-081028-37] | ENSDARP00000113059 | ENSDARP00000113059.2 |
| OG0000000 | ENSDARG00000095274 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000095274.4 | ENSDART00000192910 | ENSDART00000192910.1 | si:ch211-278p9.2 | si:ch211-278p9.2 [Source:ZFIN;Acc:ZDB-GENE-081028-37] | ENSDARP00000147598 | ENSDARP00000147598.1 |
| OG0000000 | ENSDARG00000095528 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000095528.4 | ENSDART00000133459 | ENSDART00000133459.3 | CR854897.1 | NLR family CARD domain-containing protein 3-like [Source:NCBI gene;Acc:108179100] | ENSDARP00000115094 | ENSDARP00000115094.2 |
| OG0000000 | ENSDARG00000095578 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000095578.5 | ENSDART00000131475 | ENSDART00000131475.4 | si:dkey-222h21.7 | si:dkey-222h21.7 [Source:ZFIN;Acc:ZDB-GENE-081031-33] | ENSDARP00000117255 | ENSDARP00000117255.3 |
| OG0000000 | ENSDARG00000095665 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000095665.4 | ENSDART00000143007 | ENSDART00000143007.4 | si:ch211-191a16.2 | si:ch211-191a16.2 [Source:ZFIN;Acc:ZDB-GENE-081028-45] | ENSDARP00000122197 | ENSDARP00000122197.2 |
| OG0000000 | ENSDARG00000095665 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000095665.4 | ENSDART00000183581 | ENSDART00000183581.1 | si:ch211-191a16.2 | si:ch211-191a16.2 [Source:ZFIN;Acc:ZDB-GENE-081028-45] | ENSDARP00000154759 | ENSDARP00000154759.1 |
| OG0000000 | ENSDARG00000095665 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000095665.4 | ENSDART00000157807 | ENSDART00000157807.2 | si:ch211-191a16.2 | si:ch211-191a16.2 [Source:ZFIN;Acc:ZDB-GENE-081028-45] | ENSDARP00000132133 | ENSDARP00000132133.2 |
| OG0000000 | ENSDARG00000095719 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000095719.6 | ENSDART00000140074 | ENSDART00000140074.4 | si:dkey-222h21.2 | si:dkey-222h21.2 [Source:ZFIN;Acc:ZDB-GENE-081031-20] | ENSDARP00000116988 | ENSDARP00000116988.3 |
| OG0000000 | ENSDARG00000095773 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000095773.3 | ENSDART00000160897 | ENSDART00000160897.2 | zgc:194906 | zgc:194906 [Source:ZFIN;Acc:ZDB-GENE-080722-43] | ENSDARP00000137753 | ENSDARP00000137753.1 |
| OG0000000 | ENSDARG00000096412 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000096412.2 | ENSDART00000151051 | ENSDART00000151051.2 | si:ch211-15j1.7 | si:ch211-15j1.7 [Source:ZFIN;Acc:ZDB-GENE-120214-34] | ENSDARP00000125666 | ENSDARP00000125666.1 |
| OG0000000 | ENSDARG00000096449 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000096449.3 | ENSDART00000136395 | ENSDART00000136395.3 | si:ch211-194e1.7 | si:ch211-194e1.7 [Source:ZFIN;Acc:ZDB-GENE-081105-104] | ENSDARP00000123039 | ENSDARP00000123039.2 |
| OG0000000 | ENSDARG00000096545 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000096545.4 | ENSDART00000152724 | ENSDART00000152724.3 | si:ch211-191a16.5 | si:ch211-191a16.5 [Source:ZFIN;Acc:ZDB-GENE-121214-56] | ENSDARP00000126969 | ENSDARP00000126969.2 |
| OG0000000 | ENSDARG00000096545 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000096545.4 | ENSDART00000159874 | ENSDART00000159874.2 | si:ch211-191a16.5 | si:ch211-191a16.5 [Source:ZFIN;Acc:ZDB-GENE-121214-56] | ENSDARP00000136357 | ENSDARP00000136357.2 |
| OG0000000 | ENSDARG00000097700 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000097700.3 | ENSDART00000155274 | ENSDART00000155274.3 | si:dkey-23k10.2 | si:dkey-23k10.2 [Source:ZFIN;Acc:ZDB-GENE-131122-52] | ENSDARP00000128460 | ENSDARP00000128460.1 |
| OG0000000 | ENSDARG00000097700 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000097700.3 | ENSDART00000157936 | ENSDART00000157936.2 | si:dkey-23k10.2 | si:dkey-23k10.2 [Source:ZFIN;Acc:ZDB-GENE-131122-52] | ENSDARP00000141183 | ENSDARP00000141183.2 |
| OG0000000 | ENSDARG00000098167 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000098167.2 | ENSDART00000165440 | ENSDART00000165440.2 | si:dkey-176f19.4 | si:dkey-176f19.4 [Source:ZFIN;Acc:ZDB-GENE-110913-20] | ENSDARP00000136174 | ENSDARP00000136174.1 |
| OG0000000 | ENSDARG00000098167 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000098167.2 | ENSDART00000180562 | ENSDART00000180562.1 | si:dkey-176f19.4 | si:dkey-176f19.4 [Source:ZFIN;Acc:ZDB-GENE-110913-20] | ENSDARP00000154281 | ENSDARP00000154281.1 |
| OG0000000 | ENSDARG00000098183 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000098183.3 | ENSDART00000168154 | ENSDART00000168154.2 | si:dkey-27n6.1 | si:dkey-27n6.1 [Source:ZFIN;Acc:ZDB-GENE-041014-40] | ENSDARP00000131121 | ENSDARP00000131121.1 |
| OG0000000 | ENSDARG00000098183 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000098183.3 | ENSDART00000160935 | ENSDART00000160935.2 | si:dkey-27n6.1 | si:dkey-27n6.1 [Source:ZFIN;Acc:ZDB-GENE-041014-40] | ENSDARP00000135533 | ENSDARP00000135533.2 |
| OG0000000 | ENSDARG00000098212 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000098212.2 | ENSDART00000186160 | ENSDART00000186160.1 | CABZ01024848.1 | NA | ENSDARP00000155874 | ENSDARP00000155874.1 |
| OG0000000 | ENSDARG00000098212 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000098212.2 | ENSDART00000165236 | ENSDART00000165236.2 | CABZ01024848.1 | NA | ENSDARP00000138538 | ENSDARP00000138538.2 |
| OG0000000 | ENSDARG00000098220 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000098220.2 | ENSDART00000161778 | ENSDART00000161778.2 | si:ch211-209j12.6 | si:ch211-209j12.6 [Source:ZFIN;Acc:ZDB-GENE-120703-12] | ENSDARP00000137801 | ENSDARP00000137801.1 |
| OG0000000 | ENSDARG00000098220 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000098220.2 | ENSDART00000180851 | ENSDART00000180851.1 | si:ch211-209j12.6 | si:ch211-209j12.6 [Source:ZFIN;Acc:ZDB-GENE-120703-12] | ENSDARP00000155824 | ENSDARP00000155824.1 |
| OG0000000 | ENSDARG00000098220 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000098220.2 | ENSDART00000188841 | ENSDART00000188841.1 | si:ch211-209j12.6 | si:ch211-209j12.6 [Source:ZFIN;Acc:ZDB-GENE-120703-12] | ENSDARP00000157630 | ENSDARP00000157630.1 |
| OG0000000 | ENSDARG00000098351 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000098351.2 | ENSDART00000160213 | ENSDART00000160213.2 | si:ch211-66c13.1 | si:ch211-66c13.1 [Source:ZFIN;Acc:ZDB-GENE-081103-50] | ENSDARP00000139810 | ENSDARP00000139810.1 |
| OG0000000 | ENSDARG00000098351 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000098351.2 | ENSDART00000185830 | ENSDART00000185830.1 | si:ch211-66c13.1 | si:ch211-66c13.1 [Source:ZFIN;Acc:ZDB-GENE-081103-50] | ENSDARP00000155066 | ENSDARP00000155066.1 |
| OG0000000 | ENSDARG00000098351 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000098351.2 | ENSDART00000191908 | ENSDART00000191908.1 | si:ch211-66c13.1 | si:ch211-66c13.1 [Source:ZFIN;Acc:ZDB-GENE-081103-50] | ENSDARP00000150565 | ENSDARP00000150565.1 |
| OG0000000 | ENSDARG00000098357 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000098357.2 | ENSDART00000158103 | ENSDART00000158103.2 | si:ch211-229l10.4 | si:ch211-229l10.4 [Source:ZFIN;Acc:ZDB-GENE-060503-595] | ENSDARP00000134507 | ENSDARP00000134507.1 |
| OG0000000 | ENSDARG00000098357 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000098357.2 | ENSDART00000190780 | ENSDART00000190780.1 | si:ch211-229l10.4 | si:ch211-229l10.4 [Source:ZFIN;Acc:ZDB-GENE-060503-595] | ENSDARP00000152439 | ENSDARP00000152439.1 |
| OG0000000 | ENSDARG00000098406 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000098406.2 | ENSDART00000180146 | ENSDART00000180146.1 | si:dkey-22a18.2 | si:dkey-22a18.2 [Source:ZFIN;Acc:ZDB-GENE-120703-7] | ENSDARP00000157023 | ENSDARP00000157023.1 |
| OG0000000 | ENSDARG00000098406 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000098406.2 | ENSDART00000157938 | ENSDART00000157938.2 | si:dkey-22a18.2 | si:dkey-22a18.2 [Source:ZFIN;Acc:ZDB-GENE-120703-7] | ENSDARP00000141204 | ENSDARP00000141204.1 |
| OG0000000 | ENSDARG00000098527 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000098527.2 | ENSDART00000162213 | ENSDART00000162213.2 | CABZ01060491.1 | NA | ENSDARP00000141513 | ENSDARP00000141513.2 |
| OG0000000 | ENSDARG00000098527 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000098527.2 | ENSDART00000166757 | ENSDART00000166757.2 | CABZ01060491.1 | NA | ENSDARP00000140864 | ENSDARP00000140864.2 |
| OG0000000 | ENSDARG00000098585 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000098585.2 | ENSDART00000165359 | ENSDART00000165359.2 | si:ch211-237a4.2 | si:ch211-237a4.2 [Source:ZFIN;Acc:ZDB-GENE-060503-504] | ENSDARP00000135409 | ENSDARP00000135409.1 |
| OG0000000 | ENSDARG00000098585 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000098585.2 | ENSDART00000192857 | ENSDART00000192857.1 | si:ch211-237a4.2 | si:ch211-237a4.2 [Source:ZFIN;Acc:ZDB-GENE-060503-504] | ENSDARP00000149189 | ENSDARP00000149189.1 |
| OG0000000 | ENSDARG00000098585 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000098585.2 | ENSDART00000184152 | ENSDART00000184152.1 | si:ch211-237a4.2 | si:ch211-237a4.2 [Source:ZFIN;Acc:ZDB-GENE-060503-504] | ENSDARP00000152323 | ENSDARP00000152323.1 |
| OG0000000 | ENSDARG00000098677 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000098677.2 | ENSDART00000170143 | ENSDART00000170143.2 | zgc:174180 | zgc:174180 [Source:ZFIN;Acc:ZDB-GENE-080206-1] | ENSDARP00000141572 | ENSDARP00000141572.2 |
| OG0000000 | ENSDARG00000098677 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000098677.2 | ENSDART00000164348 | ENSDART00000164348.2 | zgc:174180 | zgc:174180 [Source:ZFIN;Acc:ZDB-GENE-080206-1] | ENSDARP00000130837 | ENSDARP00000130837.1 |
| OG0000000 | ENSDARG00000098677 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000098677.2 | ENSDART00000191414 | ENSDART00000191414.1 | zgc:174180 | zgc:174180 [Source:ZFIN;Acc:ZDB-GENE-080206-1] | ENSDARP00000155718 | ENSDARP00000155718.1 |
| OG0000000 | ENSDARG00000098677 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000098677.2 | ENSDART00000187058 | ENSDART00000187058.1 | zgc:174180 | zgc:174180 [Source:ZFIN;Acc:ZDB-GENE-080206-1] | ENSDARP00000156013 | ENSDARP00000156013.1 |
| OG0000000 | ENSDARG00000098706 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000098706.2 | ENSDART00000169945 | ENSDART00000169945.2 | si:ch73-236c18.7 | si:ch73-236c18.7 [Source:ZFIN;Acc:ZDB-GENE-121214-3] | ENSDARP00000139360 | ENSDARP00000139360.1 |
| OG0000000 | ENSDARG00000098706 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000098706.2 | ENSDART00000160245 | ENSDART00000160245.2 | si:ch73-236c18.7 | si:ch73-236c18.7 [Source:ZFIN;Acc:ZDB-GENE-121214-3] | ENSDARP00000140863 | ENSDARP00000140863.1 |
| OG0000000 | ENSDARG00000098754 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000098754.2 | ENSDART00000105988 | ENSDART00000105988.5 | si:ch211-156p11.1 | si:ch211-156p11.1 [Source:ZFIN;Acc:ZDB-GENE-070912-120] | ENSDARP00000096766 | ENSDARP00000096766.4 |
| OG0000000 | ENSDARG00000099046 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000099046.2 | ENSDART00000161464 | ENSDART00000161464.2 | si:ch211-227p7.5 | si:ch211-227p7.5 [Source:ZFIN;Acc:ZDB-GENE-120703-10] | ENSDARP00000135539 | ENSDARP00000135539.1 |
| OG0000000 | ENSDARG00000099046 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000099046.2 | ENSDART00000191926 | ENSDART00000191926.1 | si:ch211-227p7.5 | si:ch211-227p7.5 [Source:ZFIN;Acc:ZDB-GENE-120703-10] | ENSDARP00000155810 | ENSDARP00000155810.1 |
| OG0000000 | ENSDARG00000099152 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000099152.2 | ENSDART00000169562 | ENSDART00000169562.2 | si:dkey-190j3.2 | si:dkey-190j3.2 [Source:ZFIN;Acc:ZDB-GENE-050208-399] | ENSDARP00000133818 | ENSDARP00000133818.1 |
| OG0000000 | ENSDARG00000099152 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000099152.2 | ENSDART00000124573 | ENSDART00000124573.3 | si:dkey-190j3.2 | si:dkey-190j3.2 [Source:ZFIN;Acc:ZDB-GENE-050208-399] | ENSDARP00000106653 | ENSDARP00000106653.3 |
| OG0000000 | ENSDARG00000099381 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000099381.2 | ENSDART00000167414 | ENSDART00000167414.2 | si:dkey-27n6.1 | si:dkey-27n6.1 [Source:ZFIN;Acc:ZDB-GENE-041014-40] | ENSDARP00000140908 | ENSDARP00000140908.1 |
| OG0000000 | ENSDARG00000099381 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000099381.2 | ENSDART00000168064 | ENSDART00000168064.2 | si:dkey-27n6.1 | si:dkey-27n6.1 [Source:ZFIN;Acc:ZDB-GENE-041014-40] | ENSDARP00000134357 | ENSDARP00000134357.2 |
| OG0000000 | ENSDARG00000099493 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000099493.2 | ENSDART00000169536 | ENSDART00000169536.2 | CR847906.1 | protein NLRC3-like [Source:NCBI gene;Acc:571651] | ENSDARP00000134860 | ENSDARP00000134860.1 |
| OG0000000 | ENSDARG00000099493 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000099493.2 | ENSDART00000182938 | ENSDART00000182938.1 | CR847906.1 | protein NLRC3-like [Source:NCBI gene;Acc:571651] | ENSDARP00000152697 | ENSDARP00000152697.1 |
| OG0000000 | ENSDARG00000099711 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000099711.2 | ENSDART00000167608 | ENSDART00000167608.2 | si:dkey-29j8.1 | si:dkey-29j8.1 [Source:ZFIN;Acc:ZDB-GENE-110913-11] | ENSDARP00000135230 | ENSDARP00000135230.1 |
| OG0000000 | ENSDARG00000099711 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000099711.2 | ENSDART00000179685 | ENSDART00000179685.1 | si:dkey-29j8.1 | si:dkey-29j8.1 [Source:ZFIN;Acc:ZDB-GENE-110913-11] | ENSDARP00000150794 | ENSDARP00000150794.1 |
| OG0000000 | ENSDARG00000099711 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000099711.2 | ENSDART00000159549 | ENSDART00000159549.2 | si:dkey-29j8.1 | si:dkey-29j8.1 [Source:ZFIN;Acc:ZDB-GENE-110913-11] | ENSDARP00000137766 | ENSDARP00000137766.2 |
| OG0000000 | ENSDARG00000099751 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000099751.2 | ENSDART00000169031 | ENSDART00000169031.2 | si:dkey-250k10.4 | si:dkey-250k10.4 [Source:ZFIN;Acc:ZDB-GENE-120703-22] | ENSDARP00000132454 | ENSDARP00000132454.1 |
| OG0000000 | ENSDARG00000099984 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000099984.3 | ENSDART00000163963 | ENSDART00000163963.2 | CABZ01023255.1 | NACHT, LRR and PYD domains-containing protein 12-like [Source:NCBI gene;Acc:110438218] | ENSDARP00000136626 | ENSDARP00000136626.2 |
| OG0000000 | ENSDARG00000100160 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000100160.2 | ENSDART00000171196 | ENSDART00000171196.2 | si:dkey-205i10.2 | si:dkey-205i10.2 [Source:ZFIN;Acc:ZDB-GENE-081104-518] | ENSDARP00000138455 | ENSDARP00000138455.1 |
| OG0000000 | ENSDARG00000100160 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000100160.2 | ENSDART00000192218 | ENSDART00000192218.1 | si:dkey-205i10.2 | si:dkey-205i10.2 [Source:ZFIN;Acc:ZDB-GENE-081104-518] | ENSDARP00000154565 | ENSDARP00000154565.1 |
| OG0000000 | ENSDARG00000100348 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000100348.2 | ENSDART00000165718 | ENSDART00000165718.2 | si:dkey-71l4.1 | si:dkey-71l4.1 [Source:ZFIN;Acc:ZDB-GENE-060526-331] | ENSDARP00000137677 | ENSDARP00000137677.1 |
| OG0000000 | ENSDARG00000100348 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000100348.2 | ENSDART00000168458 | ENSDART00000168458.2 | si:dkey-71l4.1 | si:dkey-71l4.1 [Source:ZFIN;Acc:ZDB-GENE-060526-331] | ENSDARP00000137348 | ENSDARP00000137348.2 |
| OG0000000 | ENSDARG00000100669 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000100669.2 | ENSDART00000193397 | ENSDART00000193397.1 | si:dkey-61p9.9 | si:dkey-61p9.9 [Source:ZFIN;Acc:ZDB-GENE-041210-240] | ENSDARP00000146815 | ENSDARP00000146815.1 |
| OG0000000 | ENSDARG00000100669 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000100669.2 | ENSDART00000172216 | ENSDART00000172216.2 | si:dkey-61p9.9 | si:dkey-61p9.9 [Source:ZFIN;Acc:ZDB-GENE-041210-240] | ENSDARP00000140574 | ENSDARP00000140574.2 |
| OG0000000 | ENSDARG00000100669 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000100669.2 | ENSDART00000144471 | ENSDART00000144471.3 | si:dkey-61p9.9 | si:dkey-61p9.9 [Source:ZFIN;Acc:ZDB-GENE-041210-240] | ENSDARP00000117011 | ENSDARP00000117011.3 |
| OG0000000 | ENSDARG00000100669 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000100669.2 | ENSDART00000168811 | ENSDART00000168811.2 | si:dkey-61p9.9 | si:dkey-61p9.9 [Source:ZFIN;Acc:ZDB-GENE-041210-240] | ENSDARP00000136896 | ENSDARP00000136896.1 |
| OG0000000 | ENSDARG00000100743 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000100743.2 | ENSDART00000157975 | ENSDART00000157975.2 | si:dkey-190j3.4 | si:dkey-190j3.4 [Source:ZFIN;Acc:ZDB-GENE-070424-218] | ENSDARP00000130500 | ENSDARP00000130500.1 |
| OG0000000 | ENSDARG00000100743 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000100743.2 | ENSDART00000180432 | ENSDART00000180432.1 | si:dkey-190j3.4 | si:dkey-190j3.4 [Source:ZFIN;Acc:ZDB-GENE-070424-218] | ENSDARP00000148156 | ENSDARP00000148156.1 |
| OG0000000 | ENSDARG00000100777 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000100777.2 | ENSDART00000171796 | ENSDART00000171796.2 | si:ch211-238e22.7 | si:ch211-238e22.7 [Source:ZFIN;Acc:ZDB-GENE-041210-372] | ENSDARP00000133116 | ENSDARP00000133116.1 |
| OG0000000 | ENSDARG00000101274 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000101274.2 | ENSDART00000190438 | ENSDART00000190438.1 | si:dkey-16p6.4 | si:dkey-16p6.4 [Source:ZFIN;Acc:ZDB-GENE-110913-5] | ENSDARP00000145240 | ENSDARP00000145240.1 |
| OG0000000 | ENSDARG00000101274 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000101274.2 | ENSDART00000075265 | ENSDART00000075265.6 | si:dkey-16p6.4 | si:dkey-16p6.4 [Source:ZFIN;Acc:ZDB-GENE-110913-5] | ENSDARP00000069749 | ENSDARP00000069749.6 |
| OG0000000 | ENSDARG00000101356 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000101356.2 | ENSDART00000162097 | ENSDART00000162097.2 | CABZ01044156.1 | NA | ENSDARP00000138132 | ENSDARP00000138132.2 |
| OG0000000 | ENSDARG00000101374 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000101374.2 | ENSDART00000166459 | ENSDART00000166459.2 | si:dkey-11n14.1 | si:dkey-11n14.1 [Source:ZFIN;Acc:ZDB-GENE-060503-332] | ENSDARP00000141094 | ENSDARP00000141094.2 |
| OG0000000 | ENSDARG00000101374 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000101374.2 | ENSDART00000157670 | ENSDART00000157670.2 | si:dkey-11n14.1 | si:dkey-11n14.1 [Source:ZFIN;Acc:ZDB-GENE-060503-332] | ENSDARP00000132376 | ENSDARP00000132376.1 |
| OG0000000 | ENSDARG00000101374 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000101374.2 | ENSDART00000187247 | ENSDART00000187247.1 | si:dkey-11n14.1 | si:dkey-11n14.1 [Source:ZFIN;Acc:ZDB-GENE-060503-332] | ENSDARP00000149543 | ENSDARP00000149543.1 |
| OG0000000 | ENSDARG00000101374 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000101374.2 | ENSDART00000134357 | ENSDART00000134357.3 | si:dkey-11n14.1 | si:dkey-11n14.1 [Source:ZFIN;Acc:ZDB-GENE-060503-332] | ENSDARP00000115331 | ENSDARP00000115331.3 |
| OG0000000 | ENSDARG00000101754 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000101754.2 | ENSDART00000157920 | ENSDART00000157920.2 | BX664622.1 | NA | ENSDARP00000131302 | ENSDARP00000131302.2 |
| OG0000000 | ENSDARG00000101754 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000101754.2 | ENSDART00000186767 | ENSDART00000186767.1 | BX664622.1 | NA | ENSDARP00000145695 | ENSDARP00000145695.1 |
| OG0000000 | ENSDARG00000101916 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000101916.2 | ENSDART00000182308 | ENSDART00000182308.1 | si:dkeyp-44d3.5 | si:dkeyp-44d3.5 [Source:ZFIN;Acc:ZDB-GENE-120703-2] | ENSDARP00000156032 | ENSDARP00000156032.1 |
| OG0000000 | ENSDARG00000101916 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000101916.2 | ENSDART00000172173 | ENSDART00000172173.2 | si:dkeyp-44d3.5 | si:dkeyp-44d3.5 [Source:ZFIN;Acc:ZDB-GENE-120703-2] | ENSDARP00000132198 | ENSDARP00000132198.2 |
| OG0000000 | ENSDARG00000101916 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000101916.2 | ENSDART00000163135 | ENSDART00000163135.2 | si:dkeyp-44d3.5 | si:dkeyp-44d3.5 [Source:ZFIN;Acc:ZDB-GENE-120703-2] | ENSDARP00000133462 | ENSDARP00000133462.1 |
| OG0000000 | ENSDARG00000102262 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000102262.2 | ENSDART00000160654 | ENSDART00000160654.2 | si:dkey-179k24.5 | si:dkey-179k24.5 [Source:ZFIN;Acc:ZDB-GENE-110913-28] | ENSDARP00000134916 | ENSDARP00000134916.1 |
| OG0000000 | ENSDARG00000102262 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000102262.2 | ENSDART00000186187 | ENSDART00000186187.1 | si:dkey-179k24.5 | si:dkey-179k24.5 [Source:ZFIN;Acc:ZDB-GENE-110913-28] | ENSDARP00000150994 | ENSDARP00000150994.1 |
| OG0000000 | ENSDARG00000102273 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000102273.2 | ENSDART00000162448 | ENSDART00000162448.2 | si:ch211-229l10.9 | si:ch211-229l10.9 [Source:ZFIN;Acc:ZDB-GENE-110913-139] | ENSDARP00000132964 | ENSDARP00000132964.1 |
| OG0000000 | ENSDARG00000102440 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000102440.2 | ENSDART00000170843 | ENSDART00000170843.2 | CABZ01070852.1 | NA | ENSDARP00000132841 | ENSDARP00000132841.1 |
| OG0000000 | ENSDARG00000102595 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000102595.2 | ENSDART00000184708 | ENSDART00000184708.1 | si:dkey-250k10.1 | si:dkey-250k10.1 [Source:ZFIN;Acc:ZDB-GENE-081103-24] | ENSDARP00000152382 | ENSDARP00000152382.1 |
| OG0000000 | ENSDARG00000102595 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000102595.2 | ENSDART00000165335 | ENSDART00000165335.2 | si:dkey-250k10.1 | si:dkey-250k10.1 [Source:ZFIN;Acc:ZDB-GENE-081103-24] | ENSDARP00000134790 | ENSDARP00000134790.1 |
| OG0000000 | ENSDARG00000102595 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000102595.2 | ENSDART00000169256 | ENSDART00000169256.2 | si:dkey-250k10.1 | si:dkey-250k10.1 [Source:ZFIN;Acc:ZDB-GENE-081103-24] | ENSDARP00000141941 | ENSDARP00000141941.2 |
| OG0000000 | ENSDARG00000102835 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000102835.3 | ENSDART00000187014 | ENSDART00000187014.1 | CABZ01021435.1 | NA | ENSDARP00000155329 | ENSDARP00000155329.1 |
| OG0000000 | ENSDARG00000102835 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000102835.3 | ENSDART00000165194 | ENSDART00000165194.3 | CABZ01021435.1 | NA | ENSDARP00000139779 | ENSDARP00000139779.1 |
| OG0000000 | ENSDARG00000103003 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000103003.2 | ENSDART00000157679 | ENSDART00000157679.2 | si:dkey-211i20.2 | si:dkey-211i20.2 [Source:ZFIN;Acc:ZDB-GENE-081027-6] | ENSDARP00000138098 | ENSDARP00000138098.1 |
| OG0000000 | ENSDARG00000103003 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000103003.2 | ENSDART00000191631 | ENSDART00000191631.1 | si:dkey-211i20.2 | si:dkey-211i20.2 [Source:ZFIN;Acc:ZDB-GENE-081027-6] | ENSDARP00000146683 | ENSDARP00000146683.1 |
| OG0000000 | ENSDARG00000103003 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000103003.2 | ENSDART00000191043 | ENSDART00000191043.1 | si:dkey-211i20.2 | si:dkey-211i20.2 [Source:ZFIN;Acc:ZDB-GENE-081027-6] | ENSDARP00000144899 | ENSDARP00000144899.1 |
| OG0000000 | ENSDARG00000103081 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000103081.2 | ENSDART00000115232 | ENSDART00000115232.4 | CU182107.1 | NA | ENSDARP00000102152 | ENSDARP00000102152.4 |
| OG0000000 | ENSDARG00000103119 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000103119.2 | ENSDART00000157504 | ENSDART00000157504.2 | si:dkeyp-33c10.7 | si:dkeyp-33c10.7 [Source:ZFIN;Acc:ZDB-GENE-070705-538] | ENSDARP00000136163 | ENSDARP00000136163.1 |
| OG0000000 | ENSDARG00000103265 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000103265.2 | ENSDART00000180884 | ENSDART00000180884.1 | si:ch211-223g7.2 | si:ch211-223g7.2 [Source:ZFIN;Acc:ZDB-GENE-050420-153] | ENSDARP00000145778 | ENSDARP00000145778.1 |
| OG0000000 | ENSDARG00000103265 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000103265.2 | ENSDART00000171061 | ENSDART00000171061.2 | si:ch211-223g7.2 | si:ch211-223g7.2 [Source:ZFIN;Acc:ZDB-GENE-050420-153] | ENSDARP00000140780 | ENSDARP00000140780.2 |
| OG0000000 | ENSDARG00000103265 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000103265.2 | ENSDART00000159898 | ENSDART00000159898.2 | si:ch211-223g7.2 | si:ch211-223g7.2 [Source:ZFIN;Acc:ZDB-GENE-050420-153] | ENSDARP00000131784 | ENSDARP00000131784.1 |
| OG0000000 | ENSDARG00000103265 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000103265.2 | ENSDART00000170168 | ENSDART00000170168.2 | si:ch211-223g7.2 | si:ch211-223g7.2 [Source:ZFIN;Acc:ZDB-GENE-050420-153] | ENSDARP00000130999 | ENSDARP00000130999.2 |
| OG0000000 | ENSDARG00000103330 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000103330.2 | ENSDART00000164130 | ENSDART00000164130.2 | si:ch73-236c18.5 | si:ch73-236c18.5 [Source:ZFIN;Acc:ZDB-GENE-121213-7] | ENSDARP00000139570 | ENSDARP00000139570.1 |
| OG0000000 | ENSDARG00000103381 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000103381.2 | ENSDART00000168971 | ENSDART00000168971.2 | si:ch211-196f19.1 | si:ch211-196f19.1 [Source:ZFIN;Acc:ZDB-GENE-081103-47] | ENSDARP00000137135 | ENSDARP00000137135.1 |
| OG0000000 | ENSDARG00000103381 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000103381.2 | ENSDART00000170239 | ENSDART00000170239.2 | si:ch211-196f19.1 | si:ch211-196f19.1 [Source:ZFIN;Acc:ZDB-GENE-081103-47] | ENSDARP00000133442 | ENSDARP00000133442.2 |
| OG0000000 | ENSDARG00000103755 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000103755.3 | ENSDART00000161152 | ENSDART00000161152.2 | si:dkeyp-4c4.1 | si:dkeyp-4c4.1 [Source:ZFIN;Acc:ZDB-GENE-081104-4] | ENSDARP00000130818 | ENSDARP00000130818.1 |
| OG0000000 | ENSDARG00000103755 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000103755.3 | ENSDART00000193095 | ENSDART00000193095.1 | si:dkeyp-4c4.1 | si:dkeyp-4c4.1 [Source:ZFIN;Acc:ZDB-GENE-081104-4] | ENSDARP00000145451 | ENSDARP00000145451.1 |
| OG0000000 | ENSDARG00000103755 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000103755.3 | ENSDART00000138663 | ENSDART00000138663.3 | si:dkeyp-4c4.1 | si:dkeyp-4c4.1 [Source:ZFIN;Acc:ZDB-GENE-081104-4] | ENSDARP00000125558 | ENSDARP00000125558.2 |
| OG0000000 | ENSDARG00000103829 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000103829.2 | ENSDART00000168762 | ENSDART00000168762.2 | si:ch73-236c18.2 | si:ch73-236c18.2 [Source:ZFIN;Acc:ZDB-GENE-121214-2] | ENSDARP00000131654 | ENSDARP00000131654.1 |
| OG0000000 | ENSDARG00000103946 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000103946.2 | ENSDART00000157555 | ENSDART00000157555.2 | si:dkey-124l13.1 | si:dkey-124l13.1 [Source:ZFIN;Acc:ZDB-GENE-141215-10] | ENSDARP00000136281 | ENSDARP00000136281.1 |
| OG0000000 | ENSDARG00000103946 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000103946.2 | ENSDART00000183819 | ENSDART00000183819.1 | si:dkey-124l13.1 | si:dkey-124l13.1 [Source:ZFIN;Acc:ZDB-GENE-141215-10] | ENSDARP00000151201 | ENSDARP00000151201.1 |
| OG0000000 | ENSDARG00000103952 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000103952.2 | ENSDART00000162637 | ENSDART00000162637.2 | CABZ01054391.1 | NACHT, LRR and PYD domains-containing protein 12-like [Source:NCBI gene;Acc:100150280] | ENSDARP00000137553 | ENSDARP00000137553.2 |
| OG0000000 | ENSDARG00000103952 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000103952.2 | ENSDART00000182282 | ENSDART00000182282.1 | CABZ01054391.1 | NACHT, LRR and PYD domains-containing protein 12-like [Source:NCBI gene;Acc:100150280] | ENSDARP00000146387 | ENSDARP00000146387.1 |
| OG0000000 | ENSDARG00000103952 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000103952.2 | ENSDART00000190763 | ENSDART00000190763.1 | CABZ01054391.1 | NACHT, LRR and PYD domains-containing protein 12-like [Source:NCBI gene;Acc:100150280] | ENSDARP00000146661 | ENSDARP00000146661.1 |
| OG0000000 | ENSDARG00000104026 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000104026.2 | ENSDART00000171745 | ENSDART00000171745.2 | si:dkeyp-35e5.5 | si:dkeyp-35e5.5 [Source:ZFIN;Acc:ZDB-GENE-050420-335] | ENSDARP00000136722 | ENSDARP00000136722.1 |
| OG0000000 | ENSDARG00000104026 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000104026.2 | ENSDART00000193074 | ENSDART00000193074.1 | si:dkeyp-35e5.5 | si:dkeyp-35e5.5 [Source:ZFIN;Acc:ZDB-GENE-050420-335] | ENSDARP00000155775 | ENSDARP00000155775.1 |
| OG0000000 | ENSDARG00000104026 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000104026.2 | ENSDART00000052305 | ENSDART00000052305.6 | si:dkeyp-35e5.5 | si:dkeyp-35e5.5 [Source:ZFIN;Acc:ZDB-GENE-050420-335] | ENSDARP00000136442 | ENSDARP00000136442.2 |
| OG0000000 | ENSDARG00000104415 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000104415.2 | ENSDART00000132546 | ENSDART00000132546.3 | si:ch73-236c18.6 | si:ch73-236c18.6 [Source:ZFIN;Acc:ZDB-GENE-121213-9] | ENSDARP00000113928 | ENSDARP00000113928.2 |
| OG0000000 | ENSDARG00000104424 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000104424.2 | ENSDART00000159197 | ENSDART00000159197.2 | CABZ01009512.2 | NACHT, LRR and PYD domains-containing protein 3-like [Source:NCBI gene;Acc:110437804] | ENSDARP00000138411 | ENSDARP00000138411.2 |
| OG0000000 | ENSDARG00000104424 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000104424.2 | ENSDART00000186536 | ENSDART00000186536.1 | CABZ01009512.2 | NACHT, LRR and PYD domains-containing protein 3-like [Source:NCBI gene;Acc:110437804] | ENSDARP00000151630 | ENSDARP00000151630.1 |
| OG0000000 | ENSDARG00000104619 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000104619.2 | ENSDART00000163835 | ENSDART00000163835.2 | si:ch211-171l17.4 | si:ch211-171l17.4 [Source:ZFIN;Acc:ZDB-GENE-050208-534] | ENSDARP00000141036 | ENSDARP00000141036.1 |
| OG0000000 | ENSDARG00000104619 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000104619.2 | ENSDART00000161268 | ENSDART00000161268.2 | si:ch211-171l17.4 | si:ch211-171l17.4 [Source:ZFIN;Acc:ZDB-GENE-050208-534] | ENSDARP00000140237 | ENSDARP00000140237.2 |
| OG0000000 | ENSDARG00000104619 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000104619.2 | ENSDART00000183910 | ENSDART00000183910.1 | si:ch211-171l17.4 | si:ch211-171l17.4 [Source:ZFIN;Acc:ZDB-GENE-050208-534] | ENSDARP00000148816 | ENSDARP00000148816.1 |
| OG0000000 | ENSDARG00000104704 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000104704.2 | ENSDART00000171001 | ENSDART00000171001.2 | si:ch211-271g18.1 | si:ch211-271g18.1 [Source:ZFIN;Acc:ZDB-GENE-081103-38] | ENSDARP00000131728 | ENSDARP00000131728.1 |
| OG0000000 | ENSDARG00000104704 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000104704.2 | ENSDART00000189015 | ENSDART00000189015.1 | si:ch211-271g18.1 | si:ch211-271g18.1 [Source:ZFIN;Acc:ZDB-GENE-081103-38] | ENSDARP00000152948 | ENSDARP00000152948.1 |
| OG0000000 | ENSDARG00000104890 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000104890.2 | ENSDART00000171051 | ENSDART00000171051.2 | si:ch211-76m11.3 | si:ch211-76m11.3 [Source:ZFIN;Acc:ZDB-GENE-041210-276] | ENSDARP00000133927 | ENSDARP00000133927.1 |
| OG0000000 | ENSDARG00000104890 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000104890.2 | ENSDART00000157906 | ENSDART00000157906.2 | si:ch211-76m11.3 | si:ch211-76m11.3 [Source:ZFIN;Acc:ZDB-GENE-041210-276] | ENSDARP00000135624 | ENSDARP00000135624.1 |
| OG0000000 | ENSDARG00000104890 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000104890.2 | ENSDART00000171918 | ENSDART00000171918.2 | si:ch211-76m11.3 | si:ch211-76m11.3 [Source:ZFIN;Acc:ZDB-GENE-041210-276] | NA | NA |
| OG0000000 | ENSDARG00000104890 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000104890.2 | ENSDART00000166884 | ENSDART00000166884.2 | si:ch211-76m11.3 | si:ch211-76m11.3 [Source:ZFIN;Acc:ZDB-GENE-041210-276] | ENSDARP00000136636 | ENSDARP00000136636.2 |
| OG0000000 | ENSDARG00000104956 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000104956.3 | ENSDART00000166358 | ENSDART00000166358.3 | si:dkey-165o8.2 | si:dkey-165o8.2 [Source:ZFIN;Acc:ZDB-GENE-131122-2] | ENSDARP00000137199 | ENSDARP00000137199.2 |
| OG0000000 | ENSDARG00000104956 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000104956.3 | ENSDART00000160021 | ENSDART00000160021.2 | si:dkey-165o8.2 | si:dkey-165o8.2 [Source:ZFIN;Acc:ZDB-GENE-131122-2] | ENSDARP00000131678 | ENSDARP00000131678.2 |
| OG0000000 | ENSDARG00000105119 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000105119.2 | ENSDART00000170121 | ENSDART00000170121.2 | si:ch211-258f1.3 | si:ch211-258f1.3 [Source:ZFIN;Acc:ZDB-GENE-070912-252] | ENSDARP00000137776 | ENSDARP00000137776.1 |
| OG0000000 | ENSDARG00000105119 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000105119.2 | ENSDART00000193510 | ENSDART00000193510.1 | si:ch211-258f1.3 | si:ch211-258f1.3 [Source:ZFIN;Acc:ZDB-GENE-070912-252] | ENSDARP00000148385 | ENSDARP00000148385.1 |
| OG0000000 | ENSDARG00000106998 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000106998.2 | ENSDART00000174298 | ENSDART00000174298.2 | si:dkey-240n22.6 | si:dkey-240n22.6 [Source:ZFIN;Acc:ZDB-GENE-070705-411] | ENSDARP00000143074 | ENSDARP00000143074.1 |
| OG0000000 | ENSDARG00000106998 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000106998.2 | ENSDART00000180696 | ENSDART00000180696.1 | si:dkey-240n22.6 | si:dkey-240n22.6 [Source:ZFIN;Acc:ZDB-GENE-070705-411] | ENSDARP00000146852 | ENSDARP00000146852.1 |
| OG0000000 | ENSDARG00000110290 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000110290.1 | ENSDART00000189875 | ENSDART00000189875.1 | BX005380.1 | NA | ENSDARP00000152930 | ENSDARP00000152930.1 |
| OG0000000 | ENSDARG00000110290 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000110290.1 | ENSDART00000186722 | ENSDART00000186722.1 | BX005380.1 | NA | ENSDARP00000156072 | ENSDARP00000156072.1 |
| OG0000000 | ENSDARG00000110810 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000110810.1 | ENSDART00000166410 | ENSDART00000166410.2 | si:dkey-3h2.2 | si:dkey-3h2.2 [Source:ZFIN;Acc:ZDB-GENE-070705-464] | ENSDARP00000134415 | ENSDARP00000134415.1 |
| OG0000000 | ENSDARG00000110810 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000110810.1 | ENSDART00000180542 | ENSDART00000180542.1 | si:dkey-3h2.2 | si:dkey-3h2.2 [Source:ZFIN;Acc:ZDB-GENE-070705-464] | ENSDARP00000148788 | ENSDARP00000148788.1 |
| OG0000000 | ENSDARG00000110878 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000110878.1 | ENSDART00000155084 | ENSDART00000155084.3 | si:dkey-28k24.2 | si:dkey-28k24.2 [Source:ZFIN;Acc:ZDB-GENE-121213-4] | ENSDARP00000129864 | ENSDARP00000129864.2 |
| OG0000000 | ENSDARG00000110878 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000110878.1 | ENSDART00000188299 | ENSDART00000188299.1 | si:dkey-28k24.2 | si:dkey-28k24.2 [Source:ZFIN;Acc:ZDB-GENE-121213-4] | ENSDARP00000146010 | ENSDARP00000146010.1 |
| OG0000000 | ENSDARG00000110878 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000110878.1 | ENSDART00000169426 | ENSDART00000169426.2 | si:dkey-28k24.2 | si:dkey-28k24.2 [Source:ZFIN;Acc:ZDB-GENE-121213-4] | ENSDARP00000136382 | ENSDARP00000136382.2 |
| OG0000000 | ENSDARG00000112027 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000112027.1 | ENSDART00000123408 | ENSDART00000123408.3 | si:ch211-76m11.3 | si:ch211-76m11.3 [Source:ZFIN;Acc:ZDB-GENE-041210-276] | ENSDARP00000107944 | ENSDARP00000107944.2 |
| OG0000000 | ENSDARG00000112027 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000112027.1 | ENSDART00000158476 | ENSDART00000158476.2 | si:ch211-76m11.3 | si:ch211-76m11.3 [Source:ZFIN;Acc:ZDB-GENE-041210-276] | ENSDARP00000141691 | ENSDARP00000141691.2 |
| OG0000000 | ENSDARG00000112027 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000112027.1 | ENSDART00000123293 | ENSDART00000123293.3 | si:ch211-76m11.3 | si:ch211-76m11.3 [Source:ZFIN;Acc:ZDB-GENE-041210-276] | ENSDARP00000106072 | ENSDARP00000106072.3 |
| OG0000000 | ENSDARG00000112027 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000112027.1 | ENSDART00000126434 | ENSDART00000126434.3 | si:ch211-76m11.3 | si:ch211-76m11.3 [Source:ZFIN;Acc:ZDB-GENE-041210-276] | ENSDARP00000104943 | ENSDARP00000104943.3 |
| OG0000000 | ENSDARG00000112386 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000112386.1 | ENSDART00000164912 | ENSDART00000164912.2 | si:ch73-236c18.2 | si:ch73-236c18.2 [Source:ZFIN;Acc:ZDB-GENE-121214-2] | ENSDARP00000135968 | ENSDARP00000135968.2 |
| OG0000000 | ENSDARG00000112648 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000112648.1 | ENSDART00000164505 | ENSDART00000164505.2 | si:dkeyp-82b4.2 | si:dkeyp-82b4.2 [Source:ZFIN;Acc:ZDB-GENE-060503-561] | ENSDARP00000137406 | ENSDARP00000137406.1 |
| OG0000000 | ENSDARG00000112648 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000112648.1 | ENSDART00000184022 | ENSDART00000184022.1 | si:dkeyp-82b4.2 | si:dkeyp-82b4.2 [Source:ZFIN;Acc:ZDB-GENE-060503-561] | ENSDARP00000156583 | ENSDARP00000156583.1 |
| OG0000000 | ENSDARG00000112648 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000112648.1 | ENSDART00000186865 | ENSDART00000186865.1 | si:dkeyp-82b4.2 | si:dkeyp-82b4.2 [Source:ZFIN;Acc:ZDB-GENE-060503-561] | ENSDARP00000151970 | ENSDARP00000151970.1 |
| OG0000000 | ENSDARG00000113391 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000113391.1 | ENSDART00000161410 | ENSDART00000161410.2 | si:dkey-265e15.2 | si:dkey-265e15.2 [Source:ZFIN;Acc:ZDB-GENE-081103-3] | ENSDARP00000141371 | ENSDARP00000141371.1 |
| OG0000000 | ENSDARG00000113391 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000113391.1 | ENSDART00000099781 | ENSDART00000099781.6 | si:dkey-265e15.2 | si:dkey-265e15.2 [Source:ZFIN;Acc:ZDB-GENE-081103-3] | ENSDARP00000090554 | ENSDARP00000090554.5 |
| OG0000000 | ENSDARG00000113391 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000113391.1 | ENSDART00000181919 | ENSDART00000181919.1 | si:dkey-265e15.2 | si:dkey-265e15.2 [Source:ZFIN;Acc:ZDB-GENE-081103-3] | ENSDARP00000154177 | ENSDARP00000154177.1 |
| OG0000000 | ENSDARG00000113527 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000113527.1 | ENSDART00000158211 | ENSDART00000158211.2 | si:ch211-209n20.3 | si:ch211-209n20.3 [Source:ZFIN;Acc:ZDB-GENE-070705-100] | ENSDARP00000140296 | ENSDARP00000140296.1 |
| OG0000000 | ENSDARG00000113527 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000113527.1 | ENSDART00000183414 | ENSDART00000183414.1 | si:ch211-209n20.3 | si:ch211-209n20.3 [Source:ZFIN;Acc:ZDB-GENE-070705-100] | ENSDARP00000154824 | ENSDARP00000154824.1 |
| OG0000000 | ENSDARG00000113527 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000113527.1 | ENSDART00000187075 | ENSDART00000187075.1 | si:ch211-209n20.3 | si:ch211-209n20.3 [Source:ZFIN;Acc:ZDB-GENE-070705-100] | ENSDARP00000145050 | ENSDARP00000145050.1 |
| OG0000000 | ENSDARG00000113527 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000113527.1 | ENSDART00000183225 | ENSDART00000183225.1 | si:ch211-209n20.3 | si:ch211-209n20.3 [Source:ZFIN;Acc:ZDB-GENE-070705-100] | ENSDARP00000154585 | ENSDARP00000154585.1 |
| OG0000000 | ENSDARG00000113660 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000113660.1 | ENSDART00000160043 | ENSDART00000160043.2 | si:ch211-196f19.1 | si:ch211-196f19.1 [Source:ZFIN;Acc:ZDB-GENE-081103-47] | ENSDARP00000138540 | ENSDARP00000138540.1 |
| OG0000000 | ENSDARG00000113660 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000113660.1 | ENSDART00000193329 | ENSDART00000193329.1 | si:ch211-196f19.1 | si:ch211-196f19.1 [Source:ZFIN;Acc:ZDB-GENE-081103-47] | ENSDARP00000148988 | ENSDARP00000148988.1 |
| OG0000000 | ENSDARG00000113690 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000113690.1 | ENSDART00000160463 | ENSDART00000160463.2 | si:ch211-223g7.6 | si:ch211-223g7.6 [Source:ZFIN;Acc:ZDB-GENE-050420-222] | ENSDARP00000138756 | ENSDARP00000138756.1 |
| OG0000000 | ENSDARG00000113690 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000113690.1 | ENSDART00000161238 | ENSDART00000161238.2 | si:ch211-223g7.6 | si:ch211-223g7.6 [Source:ZFIN;Acc:ZDB-GENE-050420-222] | ENSDARP00000133367 | ENSDARP00000133367.2 |
| OG0000000 | ENSDARG00000113690 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000113690.1 | ENSDART00000172136 | ENSDART00000172136.2 | si:ch211-223g7.6 | si:ch211-223g7.6 [Source:ZFIN;Acc:ZDB-GENE-050420-222] | ENSDARP00000141721 | ENSDARP00000141721.2 |
| OG0000000 | ENSDARG00000113690 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000113690.1 | ENSDART00000190736 | ENSDART00000190736.1 | si:ch211-223g7.6 | si:ch211-223g7.6 [Source:ZFIN;Acc:ZDB-GENE-050420-222] | ENSDARP00000151186 | ENSDARP00000151186.1 |
| OG0000000 | ENSDARG00000113896 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000113896.1 | ENSDART00000180541 | ENSDART00000180541.1 | si:dkey-29p23.1 | si:dkey-29p23.1 [Source:ZFIN;Acc:ZDB-GENE-081103-27] | ENSDARP00000147275 | ENSDARP00000147275.1 |
| OG0000000 | ENSDARG00000113896 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000113896.1 | ENSDART00000138679 | ENSDART00000138679.4 | si:dkey-29p23.1 | si:dkey-29p23.1 [Source:ZFIN;Acc:ZDB-GENE-081103-27] | ENSDARP00000115747 | ENSDARP00000115747.2 |
| OG0000000 | ENSDARG00000113896 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000113896.1 | ENSDART00000185353 | ENSDART00000185353.1 | si:dkey-29p23.1 | si:dkey-29p23.1 [Source:ZFIN;Acc:ZDB-GENE-081103-27] | ENSDARP00000155127 | ENSDARP00000155127.1 |
| OG0000000 | ENSDARG00000114977 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000114977.1 | ENSDART00000181556 | ENSDART00000181556.1 | CT025651.1 | protein NLRC3 [Source:NCBI gene;Acc:799502] | ENSDARP00000144725 | ENSDARP00000144725.1 |
| OG0000000 | ENSDARG00000115029 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000115029.1 | ENSDART00000165791 | ENSDART00000165791.2 | si:dkeyp-123a12.2 | si:dkeyp-123a12.2 [Source:ZFIN;Acc:ZDB-GENE-041210-271] | ENSDARP00000141231 | ENSDARP00000141231.1 |
| OG0000000 | ENSDARG00000115029 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000115029.1 | ENSDART00000163347 | ENSDART00000163347.2 | si:dkeyp-123a12.2 | si:dkeyp-123a12.2 [Source:ZFIN;Acc:ZDB-GENE-041210-271] | ENSDARP00000138052 | ENSDARP00000138052.2 |
| OG0000000 | ENSDARG00000115029 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000115029.1 | ENSDART00000168021 | ENSDART00000168021.2 | si:dkeyp-123a12.2 | si:dkeyp-123a12.2 [Source:ZFIN;Acc:ZDB-GENE-041210-271] | ENSDARP00000130815 | ENSDARP00000130815.2 |
| OG0000000 | ENSDARG00000115175 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000115175.1 | ENSDART00000188319 | ENSDART00000188319.1 | CABZ01027248.1 | NA | ENSDARP00000150452 | ENSDARP00000150452.1 |
| OG0000000 | ENSDARG00000115180 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000115180.1 | ENSDART00000186192 | ENSDART00000186192.1 | BX511214.1 | NA | ENSDARP00000145825 | ENSDARP00000145825.1 |
| OG0000000 | ENSDARG00000116197 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000116197.1 | ENSDART00000171191 | ENSDART00000171191.2 | si:dkeyp-4c4.2 | si:dkeyp-4c4.2 [Source:ZFIN;Acc:ZDB-GENE-130530-1] | ENSDARP00000131106 | ENSDARP00000131106.2 |
| OG0000000 | ENSDARG00000116197 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000116197.1 | ENSDART00000161611 | ENSDART00000161611.2 | si:dkeyp-4c4.2 | si:dkeyp-4c4.2 [Source:ZFIN;Acc:ZDB-GENE-130530-1] | ENSDARP00000132553 | ENSDARP00000132553.1 |
| OG0000000 | ENSDARG00000116197 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000116197.1 | ENSDART00000193902 | ENSDART00000193902.1 | si:dkeyp-4c4.2 | si:dkeyp-4c4.2 [Source:ZFIN;Acc:ZDB-GENE-130530-1] | ENSDARP00000157458 | ENSDARP00000157458.1 |
| OG0000000 | ENSDARG00000116197 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000116197.1 | ENSDART00000183582 | ENSDART00000183582.1 | si:dkeyp-4c4.2 | si:dkeyp-4c4.2 [Source:ZFIN;Acc:ZDB-GENE-130530-1] | ENSDARP00000155349 | ENSDARP00000155349.1 |
| OG0000001 | ENSDARG00000003909 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000003909.11 | ENSDART00000100524 | ENSDART00000100524.5 | ftr01 | finTRIM family, member 1 [Source:ZFIN;Acc:ZDB-GENE-070705-491] | ENSDARP00000091297 | ENSDARP00000091297.3 |
| OG0000001 | ENSDARG00000005327 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000005327.14 | ENSDART00000156530 | ENSDART00000156530.2 | ftr66 | finTRIM family, member 66 [Source:ZFIN;Acc:ZDB-GENE-070912-661] | ENSDARP00000128599 | ENSDARP00000128599.1 |
| OG0000001 | ENSDARG00000008396 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000008396.11 | ENSDART00000056306 | ENSDART00000056306.6 | ftr24 | finTRIM family, member 24 [Source:ZFIN;Acc:ZDB-GENE-050731-2] | ENSDARP00000056305 | ENSDARP00000056305.5 |
| OG0000001 | ENSDARG00000009161 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000009161.12 | ENSDART00000019843 | ENSDART00000019843.8 | ftr55 | finTRIM family, member 55 [Source:ZFIN;Acc:ZDB-GENE-070424-161] | ENSDARP00000024194 | ENSDARP00000024194.7 |
| OG0000001 | ENSDARG00000029105 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000029105.10 | ENSDART00000132323 | ENSDART00000132323.3 | ftr51 | finTRIM family, member 51 [Source:ZFIN;Acc:ZDB-GENE-081104-54] | ENSDARP00000115448 | ENSDARP00000115448.2 |
| OG0000001 | ENSDARG00000029105 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000029105.10 | ENSDART00000189262 | ENSDART00000189262.1 | ftr51 | finTRIM family, member 51 [Source:ZFIN;Acc:ZDB-GENE-081104-54] | ENSDARP00000146098 | ENSDARP00000146098.1 |
| OG0000001 | ENSDARG00000029105 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000029105.10 | ENSDART00000183816 | ENSDART00000183816.1 | ftr51 | finTRIM family, member 51 [Source:ZFIN;Acc:ZDB-GENE-081104-54] | ENSDARP00000153776 | ENSDARP00000153776.1 |
| OG0000001 | ENSDARG00000029105 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000029105.10 | ENSDART00000174291 | ENSDART00000174291.2 | ftr51 | finTRIM family, member 51 [Source:ZFIN;Acc:ZDB-GENE-081104-54] | ENSDARP00000143067 | ENSDARP00000143067.1 |
| OG0000001 | ENSDARG00000030954 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000030954.9 | ENSDART00000103703 | ENSDART00000103703.5 | ftr56 | finTRIM family, member 56 [Source:ZFIN;Acc:ZDB-GENE-030131-2801] | ENSDARP00000094478 | ENSDARP00000094478.4 |
| OG0000001 | ENSDARG00000030954 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000030954.9 | ENSDART00000151586 | ENSDART00000151586.2 | ftr56 | finTRIM family, member 56 [Source:ZFIN;Acc:ZDB-GENE-030131-2801] | NA | NA |
| OG0000001 | ENSDARG00000032043 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000032043.11 | ENSDART00000056164 | ENSDART00000056164.7 | ftr16 | finTRIM family, member 16 [Source:ZFIN;Acc:ZDB-GENE-070912-126] | ENSDARP00000056163 | ENSDARP00000056163.6 |
| OG0000001 | ENSDARG00000032043 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000032043.11 | ENSDART00000098052 | ENSDART00000098052.5 | ftr16 | finTRIM family, member 16 [Source:ZFIN;Acc:ZDB-GENE-070912-126] | ENSDARP00000088825 | ENSDARP00000088825.5 |
| OG0000001 | ENSDARG00000038646 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000038646.7 | ENSDART00000141989 | ENSDART00000141989.3 | ftr11 | finTRIM family, member 11 [Source:ZFIN;Acc:ZDB-GENE-070912-195] | ENSDARP00000120663 | ENSDARP00000120663.1 |
| OG0000001 | ENSDARG00000038646 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000038646.7 | ENSDART00000005767 | ENSDART00000005767.8 | ftr11 | finTRIM family, member 11 [Source:ZFIN;Acc:ZDB-GENE-070912-195] | ENSDARP00000017772 | ENSDARP00000017772.6 |
| OG0000001 | ENSDARG00000041220 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000041220.7 | ENSDART00000130995 | ENSDART00000130995.3 | ftr53 | finTRIM family, member 53 [Source:ZFIN;Acc:ZDB-GENE-030616-515] | ENSDARP00000108557 | ENSDARP00000108557.2 |
| OG0000001 | ENSDARG00000041220 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000041220.7 | ENSDART00000141997 | ENSDART00000141997.2 | ftr53 | finTRIM family, member 53 [Source:ZFIN;Acc:ZDB-GENE-030616-515] | ENSDARP00000113518 | ENSDARP00000113518.1 |
| OG0000001 | ENSDARG00000041220 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000041220.7 | ENSDART00000060425 | ENSDART00000060425.6 | ftr53 | finTRIM family, member 53 [Source:ZFIN;Acc:ZDB-GENE-030616-515] | ENSDARP00000060424 | ENSDARP00000060424.5 |
| OG0000001 | ENSDARG00000043850 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000043850.6 | ENSDART00000064327 | ENSDART00000064327.5 | ftr54 | finTRIM family, member 54 [Source:ZFIN;Acc:ZDB-GENE-070620-19] | ENSDARP00000064326 | ENSDARP00000064326.3 |
| OG0000001 | ENSDARG00000053293 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000053293.6 | ENSDART00000098284 | ENSDART00000098284.4 | ftr14 | finTRIM family, member 14 [Source:ZFIN;Acc:ZDB-GENE-060512-201] | ENSDARP00000089056 | ENSDARP00000089056.3 |
| OG0000001 | ENSDARG00000053366 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000053366.8 | ENSDART00000037332 | ENSDART00000037332.8 | ftr12 | finTRIM family, member 12 [Source:ZFIN;Acc:ZDB-GENE-070912-196] | ENSDARP00000034418 | ENSDARP00000034418.8 |
| OG0000001 | ENSDARG00000053366 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000053366.8 | ENSDART00000185485 | ENSDART00000185485.1 | ftr12 | finTRIM family, member 12 [Source:ZFIN;Acc:ZDB-GENE-070912-196] | ENSDARP00000153673 | ENSDARP00000153673.1 |
| OG0000001 | ENSDARG00000053366 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000053366.8 | ENSDART00000143419 | ENSDART00000143419.3 | ftr12 | finTRIM family, member 12 [Source:ZFIN;Acc:ZDB-GENE-070912-196] | ENSDARP00000114880 | ENSDARP00000114880.1 |
| OG0000001 | ENSDARG00000053366 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000053366.8 | ENSDART00000184371 | ENSDART00000184371.1 | ftr12 | finTRIM family, member 12 [Source:ZFIN;Acc:ZDB-GENE-070912-196] | ENSDARP00000153561 | ENSDARP00000153561.1 |
| OG0000001 | ENSDARG00000053366 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000053366.8 | ENSDART00000183914 | ENSDART00000183914.1 | ftr12 | finTRIM family, member 12 [Source:ZFIN;Acc:ZDB-GENE-070912-196] | ENSDARP00000151047 | ENSDARP00000151047.1 |
| OG0000001 | ENSDARG00000053450 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000053450.8 | ENSDART00000140599 | ENSDART00000140599.2 | ftr06 | finTRIM family, member 6 [Source:ZFIN;Acc:ZDB-GENE-070912-228] | ENSDARP00000115708 | ENSDARP00000115708.1 |
| OG0000001 | ENSDARG00000053450 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000053450.8 | ENSDART00000178811 | ENSDART00000178811.2 | ftr06 | finTRIM family, member 6 [Source:ZFIN;Acc:ZDB-GENE-070912-228] | ENSDARP00000143502 | ENSDARP00000143502.1 |
| OG0000001 | ENSDARG00000055476 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000055476.6 | ENSDART00000165118 | ENSDART00000165118.2 | CR352329.1 | tripartite motif-containing protein 16-like [Source:NCBI gene;Acc:100006839] | ENSDARP00000141822 | ENSDARP00000141822.2 |
| OG0000001 | ENSDARG00000067985 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000067985.8 | ENSDART00000159701 | ENSDART00000159701.3 | ftr23 | finTRIM family, member 23 [Source:ZFIN;Acc:ZDB-GENE-070912-322] | ENSDARP00000135994 | ENSDARP00000135994.1 |
| OG0000001 | ENSDARG00000067985 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000067985.8 | ENSDART00000122206 | ENSDART00000122206.3 | ftr23 | finTRIM family, member 23 [Source:ZFIN;Acc:ZDB-GENE-070912-322] | ENSDARP00000112154 | ENSDARP00000112154.2 |
| OG0000001 | ENSDARG00000071238 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000071238.5 | ENSDART00000056426 | ENSDART00000056426.6 | ftr58 | finTRIM family, member 58 [Source:ZFIN;Acc:ZDB-GENE-080219-44] | ENSDARP00000056425 | ENSDARP00000056425.5 |
| OG0000001 | ENSDARG00000071238 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000071238.5 | ENSDART00000055085 | ENSDART00000055085.6 | ftr58 | finTRIM family, member 58 [Source:ZFIN;Acc:ZDB-GENE-080219-44] | NA | NA |
| OG0000001 | ENSDARG00000073735 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000073735.6 | ENSDART00000109246 | ENSDART00000109246.4 | ftr95 | finTRIM family, member 95 [Source:ZFIN;Acc:ZDB-GENE-070912-105] | ENSDARP00000101738 | ENSDARP00000101738.3 |
| OG0000001 | ENSDARG00000073735 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000073735.6 | ENSDART00000170594 | ENSDART00000170594.2 | ftr95 | finTRIM family, member 95 [Source:ZFIN;Acc:ZDB-GENE-070912-105] | ENSDARP00000133486 | ENSDARP00000133486.2 |
| OG0000001 | ENSDARG00000074118 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000074118.5 | ENSDART00000061170 | ENSDART00000061170.6 | ftr12 | finTRIM family, member 12 [Source:ZFIN;Acc:ZDB-GENE-070912-196] | ENSDARP00000061169 | ENSDARP00000061169.5 |
| OG0000001 | ENSDARG00000074118 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000074118.5 | ENSDART00000056161 | ENSDART00000056161.7 | ftr12 | finTRIM family, member 12 [Source:ZFIN;Acc:ZDB-GENE-070912-196] | ENSDARP00000056160 | ENSDARP00000056160.5 |
| OG0000001 | ENSDARG00000074360 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000074360.5 | ENSDART00000134527 | ENSDART00000134527.2 | ftr57 | finTRIM family, member 57 [Source:ZFIN;Acc:ZDB-GENE-090312-35] | ENSDARP00000113052 | ENSDARP00000113052.1 |
| OG0000001 | ENSDARG00000074360 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000074360.5 | ENSDART00000112220 | ENSDART00000112220.4 | ftr57 | finTRIM family, member 57 [Source:ZFIN;Acc:ZDB-GENE-090312-35] | ENSDARP00000098049 | ENSDARP00000098049.4 |
| OG0000001 | ENSDARG00000075355 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000075355.6 | ENSDART00000143980 | ENSDART00000143980.2 | ftr29 | finTRIM family, member 29 [Source:ZFIN;Acc:ZDB-GENE-050417-159] | ENSDARP00000117996 | ENSDARP00000117996.1 |
| OG0000001 | ENSDARG00000075355 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000075355.6 | ENSDART00000184190 | ENSDART00000184190.1 | ftr29 | finTRIM family, member 29 [Source:ZFIN;Acc:ZDB-GENE-050417-159] | ENSDARP00000145039 | ENSDARP00000145039.1 |
| OG0000001 | ENSDARG00000076969 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000076969.5 | ENSDART00000185328 | ENSDART00000185328.1 | ftr22 | finTRIM family, member 22 [Source:ZFIN;Acc:ZDB-GENE-070912-321] | ENSDARP00000150934 | ENSDARP00000150934.1 |
| OG0000001 | ENSDARG00000076969 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000076969.5 | ENSDART00000126740 | ENSDART00000126740.3 | ftr22 | finTRIM family, member 22 [Source:ZFIN;Acc:ZDB-GENE-070912-321] | ENSDARP00000112481 | ENSDARP00000112481.2 |
| OG0000001 | ENSDARG00000078065 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000078065.4 | ENSDART00000142854 | ENSDART00000142854.2 | ftr05 | finTRIM family, member 5 [Source:ZFIN;Acc:ZDB-GENE-070912-227] | ENSDARP00000119310 | ENSDARP00000119310.2 |
| OG0000001 | ENSDARG00000078254 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000078254.5 | ENSDART00000136024 | ENSDART00000136024.2 | ftr14l | finTRIM family, member 14-like [Source:ZFIN;Acc:ZDB-GENE-090312-123] | ENSDARP00000117219 | ENSDARP00000117219.1 |
| OG0000001 | ENSDARG00000079412 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000079412.5 | ENSDART00000141199 | ENSDART00000141199.2 | ftr02 | finTRIM family, member 2 [Source:ZFIN;Acc:ZDB-GENE-070424-5] | ENSDARP00000114879 | ENSDARP00000114879.1 |
| OG0000001 | ENSDARG00000079412 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000079412.5 | ENSDART00000114162 | ENSDART00000114162.4 | ftr02 | finTRIM family, member 2 [Source:ZFIN;Acc:ZDB-GENE-070424-5] | ENSDARP00000097838 | ENSDARP00000097838.2 |
| OG0000001 | ENSDARG00000079537 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000079537.6 | ENSDART00000056162 | ENSDART00000056162.7 | ftr13 | finTRIM family, member 13 [Source:ZFIN;Acc:ZDB-GENE-070912-395] | ENSDARP00000056161 | ENSDARP00000056161.6 |
| OG0000001 | ENSDARG00000079537 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000079537.6 | ENSDART00000039079 | ENSDART00000039079.8 | ftr13 | finTRIM family, member 13 [Source:ZFIN;Acc:ZDB-GENE-070912-395] | ENSDARP00000039146 | ENSDARP00000039146.8 |
| OG0000001 | ENSDARG00000079614 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000079614.5 | ENSDART00000131880 | ENSDART00000131880.2 | ftr34 | finTRIM family, member 34 [Source:ZFIN;Acc:ZDB-GENE-070912-110] | ENSDARP00000113336 | ENSDARP00000113336.1 |
| OG0000001 | ENSDARG00000079614 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000079614.5 | ENSDART00000181616 | ENSDART00000181616.1 | ftr34 | finTRIM family, member 34 [Source:ZFIN;Acc:ZDB-GENE-070912-110] | ENSDARP00000145696 | ENSDARP00000145696.1 |
| OG0000001 | ENSDARG00000087057 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000087057.5 | ENSDART00000133734 | ENSDART00000133734.2 | ftr36 | finTRIM family, member 36 [Source:ZFIN;Acc:ZDB-GENE-070912-483] | ENSDARP00000123452 | ENSDARP00000123452.1 |
| OG0000001 | ENSDARG00000089388 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000089388.5 | ENSDART00000140840 | ENSDART00000140840.2 | ftr35 | finTRIM family, member 35 [Source:ZFIN;Acc:ZDB-GENE-070912-111] | ENSDARP00000122720 | ENSDARP00000122720.1 |
| OG0000001 | ENSDARG00000089388 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000089388.5 | ENSDART00000100987 | ENSDART00000100987.5 | ftr35 | finTRIM family, member 35 [Source:ZFIN;Acc:ZDB-GENE-070912-111] | ENSDARP00000091759 | ENSDARP00000091759.5 |
| OG0000001 | ENSDARG00000092745 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000092745.2 | ENSDART00000134662 | ENSDART00000134662.2 | ftr37 | finTRIM family, member 37 [Source:ZFIN;Acc:ZDB-GENE-070912-486] | ENSDARP00000118300 | ENSDARP00000118300.1 |
| OG0000001 | ENSDARG00000092961 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000092961.3 | ENSDART00000140555 | ENSDART00000140555.2 | ftr26 | finTRIM family, member 26 [Source:ZFIN;Acc:ZDB-GENE-070912-316] | ENSDARP00000121319 | ENSDARP00000121319.1 |
| OG0000001 | ENSDARG00000093203 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000093203.3 | ENSDART00000141384 | ENSDART00000141384.2 | ftr32 | finTRIM family, member 32 [Source:ZFIN;Acc:ZDB-GENE-070912-108] | ENSDARP00000118622 | ENSDARP00000118622.1 |
| OG0000001 | ENSDARG00000093651 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000093651.4 | ENSDART00000143023 | ENSDART00000143023.2 | ftr25 | finTRIM family, member 25 [Source:ZFIN;Acc:ZDB-GENE-070912-323] | ENSDARP00000114148 | ENSDARP00000114148.1 |
| OG0000001 | ENSDARG00000094131 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000094131.3 | ENSDART00000098054 | ENSDART00000098054.4 | ftr19 | finTRIM family, member 19 [Source:ZFIN;Acc:ZDB-GENE-090506-5] | ENSDARP00000088827 | ENSDARP00000088827.4 |
| OG0000001 | ENSDARG00000094131 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000094131.3 | ENSDART00000135584 | ENSDART00000135584.2 | ftr19 | finTRIM family, member 19 [Source:ZFIN;Acc:ZDB-GENE-090506-5] | ENSDARP00000117323 | ENSDARP00000117323.1 |
| OG0000001 | ENSDARG00000095032 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000095032.4 | ENSDART00000146341 | ENSDART00000146341.2 | ftr33 | finTRIM family, member 33 [Source:ZFIN;Acc:ZDB-GENE-070912-109] | ENSDARP00000117761 | ENSDARP00000117761.1 |
| OG0000001 | ENSDARG00000095032 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000095032.4 | ENSDART00000097799 | ENSDART00000097799.5 | ftr33 | finTRIM family, member 33 [Source:ZFIN;Acc:ZDB-GENE-070912-109] | ENSDARP00000088571 | ENSDARP00000088571.4 |
| OG0000001 | ENSDARG00000095448 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000095448.3 | ENSDART00000141876 | ENSDART00000141876.2 | ftr30 | finTRIM family, member 30 [Source:ZFIN;Acc:ZDB-GENE-070912-106] | ENSDARP00000119418 | ENSDARP00000119418.1 |
| OG0000001 | ENSDARG00000095448 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000095448.3 | ENSDART00000182452 | ENSDART00000182452.1 | ftr30 | finTRIM family, member 30 [Source:ZFIN;Acc:ZDB-GENE-070912-106] | ENSDARP00000146322 | ENSDARP00000146322.1 |
| OG0000001 | ENSDARG00000095448 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000095448.3 | ENSDART00000056417 | ENSDART00000056417.5 | ftr30 | finTRIM family, member 30 [Source:ZFIN;Acc:ZDB-GENE-070912-106] | ENSDARP00000056416 | ENSDARP00000056416.5 |
| OG0000001 | ENSDARG00000095678 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000095678.4 | ENSDART00000137134 | ENSDART00000137134.2 | ftr38 | finTRIM family, member 38 [Source:ZFIN;Acc:ZDB-GENE-070912-487] | ENSDARP00000122131 | ENSDARP00000122131.1 |
| OG0000001 | ENSDARG00000095678 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000095678.4 | ENSDART00000193624 | ENSDART00000193624.1 | ftr38 | finTRIM family, member 38 [Source:ZFIN;Acc:ZDB-GENE-070912-487] | ENSDARP00000157620 | ENSDARP00000157620.1 |
| OG0000001 | ENSDARG00000095864 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000095864.3 | ENSDART00000148970 | ENSDART00000148970.3 | ftr59 | finTRIM family, member 59 [Source:ZFIN;Acc:ZDB-GENE-090508-4] | ENSDARP00000124507 | ENSDARP00000124507.1 |
| OG0000001 | ENSDARG00000098820 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000098820.3 | ENSDART00000167987 | ENSDART00000167987.2 | ftr67 | finTRIM family, member 67 [Source:ZFIN;Acc:ZDB-GENE-060312-27] | ENSDARP00000133898 | ENSDARP00000133898.1 |
| OG0000001 | ENSDARG00000100250 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000100250.2 | ENSDART00000164710 | ENSDART00000164710.2 | ftr41 | finTRIM family, member 41 [Source:ZFIN;Acc:ZDB-GENE-090507-6] | ENSDARP00000140794 | ENSDARP00000140794.2 |
| OG0000001 | ENSDARG00000101514 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000101514.2 | ENSDART00000169130 | ENSDART00000169130.2 | ftr64 | finTRIM family, member 64 [Source:ZFIN;Acc:ZDB-GENE-090508-8] | ENSDARP00000137899 | ENSDARP00000137899.1 |
| OG0000001 | ENSDARG00000102557 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000102557.2 | ENSDART00000158131 | ENSDART00000158131.2 | ftr87 | finTRIM family, member 87 [Source:ZFIN;Acc:ZDB-GENE-131127-62] | ENSDARP00000141919 | ENSDARP00000141919.1 |
| OG0000001 | ENSDARG00000110329 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000110329.1 | ENSDART00000182084 | ENSDART00000182084.1 | ftr53 | finTRIM family, member 53 [Source:ZFIN;Acc:ZDB-GENE-030616-515] | ENSDARP00000146216 | ENSDARP00000146216.1 |
| OG0000001 | ENSDARG00000110400 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000110400.1 | ENSDART00000190214 | ENSDART00000190214.1 | ftr53 | finTRIM family, member 53 [Source:ZFIN;Acc:ZDB-GENE-030616-515] | ENSDARP00000154175 | ENSDARP00000154175.1 |
| OG0000001 | ENSDARG00000110960 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000110960.1 | ENSDART00000182400 | ENSDART00000182400.1 | BX769173.1 | NA | ENSDARP00000157324 | ENSDARP00000157324.1 |
| OG0000001 | ENSDARG00000110978 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000110978.1 | ENSDART00000192303 | ENSDART00000192303.1 | ftr32 | finTRIM family, member 32 [Source:ZFIN;Acc:ZDB-GENE-070912-108] | ENSDARP00000152105 | ENSDARP00000152105.1 |
| OG0000001 | ENSDARG00000110978 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000110978.1 | ENSDART00000159362 | ENSDART00000159362.2 | ftr32 | finTRIM family, member 32 [Source:ZFIN;Acc:ZDB-GENE-070912-108] | ENSDARP00000135079 | ENSDARP00000135079.2 |
| OG0000001 | ENSDARG00000111722 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000111722.1 | ENSDART00000128320 | ENSDART00000128320.4 | ftr36 | finTRIM family, member 36 [Source:ZFIN;Acc:ZDB-GENE-070912-483] | ENSDARP00000105706 | ENSDARP00000105706.4 |
| OG0000001 | ENSDARG00000111935 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000111935.1 | ENSDART00000186138 | ENSDART00000186138.1 | BX769173.2 | finTRIM family, member 94 [Source:NCBI gene;Acc:566988] | ENSDARP00000152143 | ENSDARP00000152143.1 |
| OG0000001 | ENSDARG00000112253 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000112253.1 | ENSDART00000191263 | ENSDART00000191263.1 | ftr24 | finTRIM family, member 24 [Source:ZFIN;Acc:ZDB-GENE-050731-2] | ENSDARP00000146127 | ENSDARP00000146127.1 |
| OG0000001 | ENSDARG00000113522 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000113522.1 | ENSDART00000190570 | ENSDART00000190570.1 | ftr12 | finTRIM family, member 12 [Source:ZFIN;Acc:ZDB-GENE-070912-196] | ENSDARP00000147220 | ENSDARP00000147220.1 |
| OG0000001 | ENSDARG00000113522 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000113522.1 | ENSDART00000192974 | ENSDART00000192974.1 | ftr12 | finTRIM family, member 12 [Source:ZFIN;Acc:ZDB-GENE-070912-196] | ENSDARP00000148150 | ENSDARP00000148150.1 |
| OG0000001 | ENSDARG00000113522 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000113522.1 | ENSDART00000193784 | ENSDART00000193784.1 | ftr12 | finTRIM family, member 12 [Source:ZFIN;Acc:ZDB-GENE-070912-196] | ENSDARP00000152269 | ENSDARP00000152269.1 |
| OG0000001 | ENSDARG00000113917 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000113917.1 | ENSDART00000182245 | ENSDART00000182245.1 | ftr22 | finTRIM family, member 22 [Source:ZFIN;Acc:ZDB-GENE-070912-321] | ENSDARP00000151199 | ENSDARP00000151199.1 |
| OG0000001 | ENSDARG00000114992 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000114992.1 | ENSDART00000165319 | ENSDART00000165319.2 | BX769173.3 | finTRIM family, member 42 [Source:NCBI gene;Acc:567166] | ENSDARP00000131378 | ENSDARP00000131378.1 |
| OG0000001 | ENSDARG00000115336 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000115336.1 | ENSDART00000154422 | ENSDART00000154422.3 | ftr11 | finTRIM family, member 11 [Source:ZFIN;Acc:ZDB-GENE-070912-195] | ENSDARP00000129556 | ENSDARP00000129556.3 |
| OG0000001 | ENSDARG00000115401 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000115401.1 | ENSDART00000160638 | ENSDART00000160638.2 | BX769173.4 | finTRIM family, member 42 [Source:NCBI gene;Acc:567166] | ENSDARP00000140897 | ENSDARP00000140897.2 |
| OG0000001 | ENSDARG00000115500 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000115500.1 | ENSDART00000181262 | ENSDART00000181262.1 | BX548047.2 | NA | ENSDARP00000150123 | ENSDARP00000150123.1 |
| OG0000001 | ENSDARG00000116082 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000116082.1 | ENSDART00000181449 | ENSDART00000181449.1 | ftr53 | finTRIM family, member 53 [Source:ZFIN;Acc:ZDB-GENE-030616-515] | ENSDARP00000148131 | ENSDARP00000148131.1 |
| OG0000001 | ENSDARG00000116989 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000116989.1 | ENSDART00000162697 | ENSDART00000162697.2 | ftr59 | finTRIM family, member 59 [Source:ZFIN;Acc:ZDB-GENE-090508-4] | ENSDARP00000141041 | ENSDARP00000141041.2 |
| OG0000002 | ENSDARG00000008164 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000008164.8 | ENSDART00000066816 | ENSDART00000066816.4 | btr33 | bloodthirsty-related gene family, member 33 [Source:ZFIN;Acc:ZDB-GENE-090512-4] | ENSDARP00000066815 | ENSDARP00000066815.4 |
| OG0000002 | ENSDARG00000027907 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000027907.9 | ENSDART00000171085 | ENSDART00000171085.3 | si:ch211-216p19.6 | si:ch211-216p19.6 [Source:ZFIN;Acc:ZDB-GENE-160728-7] | ENSDARP00000134995 | ENSDARP00000134995.2 |
| OG0000002 | ENSDARG00000027907 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000027907.9 | ENSDART00000038118 | ENSDART00000038118.9 | si:ch211-216p19.6 | si:ch211-216p19.6 [Source:ZFIN;Acc:ZDB-GENE-160728-7] | ENSDARP00000036656 | ENSDARP00000036656.8 |
| OG0000002 | ENSDARG00000027907 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000027907.9 | ENSDART00000169737 | ENSDART00000169737.2 | si:ch211-216p19.6 | si:ch211-216p19.6 [Source:ZFIN;Acc:ZDB-GENE-160728-7] | ENSDARP00000139571 | ENSDARP00000139571.2 |
| OG0000002 | ENSDARG00000028850 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000028850.9 | ENSDART00000136280 | ENSDART00000136280.2 | btr16 | bloodthirsty-related gene family, member 16 [Source:ZFIN;Acc:ZDB-GENE-060929-1066] | ENSDARP00000113503 | ENSDARP00000113503.1 |
| OG0000002 | ENSDARG00000028850 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000028850.9 | ENSDART00000141508 | ENSDART00000141508.3 | btr16 | bloodthirsty-related gene family, member 16 [Source:ZFIN;Acc:ZDB-GENE-060929-1066] | ENSDARP00000120795 | ENSDARP00000120795.1 |
| OG0000002 | ENSDARG00000051804 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000051804.6 | ENSDART00000130539 | ENSDART00000130539.2 | BX664721.1 | NA | ENSDARP00000109197 | ENSDARP00000109197.1 |
| OG0000002 | ENSDARG00000053940 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000053940.6 | ENSDART00000076048 | ENSDART00000076048.5 | btr32 | bloodthirsty-related gene family, member 32 [Source:ZFIN;Acc:ZDB-GENE-060421-3827] | ENSDARP00000070527 | ENSDARP00000070527.4 |
| OG0000002 | ENSDARG00000054184 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000054184.7 | ENSDART00000173946 | ENSDART00000173946.2 | btr06 | bloodthirsty-related gene family, member 6 [Source:ZFIN;Acc:ZDB-GENE-080516-2] | ENSDARP00000142639 | ENSDARP00000142639.1 |
| OG0000002 | ENSDARG00000054184 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000054184.7 | ENSDART00000076318 | ENSDART00000076318.3 | btr06 | bloodthirsty-related gene family, member 6 [Source:ZFIN;Acc:ZDB-GENE-080516-2] | ENSDARP00000070793 | ENSDARP00000070793.2 |
| OG0000002 | ENSDARG00000054805 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000054805.5 | ENSDART00000173604 | ENSDART00000173604.2 | btr09 | bloodthirsty-related gene family, member 9 [Source:ZFIN;Acc:ZDB-GENE-080722-46] | ENSDARP00000142813 | ENSDARP00000142813.1 |
| OG0000002 | ENSDARG00000054805 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000054805.5 | ENSDART00000173542 | ENSDART00000173542.2 | btr09 | bloodthirsty-related gene family, member 9 [Source:ZFIN;Acc:ZDB-GENE-080722-46] | ENSDARP00000142935 | ENSDARP00000142935.1 |
| OG0000002 | ENSDARG00000054805 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000054805.5 | ENSDART00000077047 | ENSDART00000077047.4 | btr09 | bloodthirsty-related gene family, member 9 [Source:ZFIN;Acc:ZDB-GENE-080722-46] | ENSDARP00000071515 | ENSDARP00000071515.2 |
| OG0000002 | ENSDARG00000058329 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000058329.7 | ENSDART00000156332 | ENSDART00000156332.2 | btr21 | bloodthirsty-related gene family, member 21 [Source:ZFIN;Acc:ZDB-GENE-081031-80] | ENSDARP00000128001 | ENSDARP00000128001.1 |
| OG0000002 | ENSDARG00000058329 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000058329.7 | ENSDART00000101635 | ENSDART00000101635.5 | btr21 | bloodthirsty-related gene family, member 21 [Source:ZFIN;Acc:ZDB-GENE-081031-80] | ENSDARP00000092409 | ENSDARP00000092409.5 |
| OG0000002 | ENSDARG00000060962 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000060962.9 | ENSDART00000173492 | ENSDART00000173492.2 | btr04 | bloodthirsty-related gene family, member 4 [Source:ZFIN;Acc:ZDB-GENE-060825-109] | ENSDARP00000142635 | ENSDARP00000142635.1 |
| OG0000002 | ENSDARG00000060962 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000060962.9 | ENSDART00000173739 | ENSDART00000173739.2 | btr04 | bloodthirsty-related gene family, member 4 [Source:ZFIN;Acc:ZDB-GENE-060825-109] | ENSDARP00000142927 | ENSDARP00000142927.1 |
| OG0000002 | ENSDARG00000074813 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000074813.5 | ENSDART00000171008 | ENSDART00000171008.2 | btr05 | bloodthirsty-related gene family, member 5 [Source:ZFIN;Acc:ZDB-GENE-080219-8] | ENSDARP00000135003 | ENSDARP00000135003.1 |
| OG0000002 | ENSDARG00000074813 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000074813.5 | ENSDART00000173584 | ENSDART00000173584.2 | btr05 | bloodthirsty-related gene family, member 5 [Source:ZFIN;Acc:ZDB-GENE-080219-8] | ENSDARP00000142903 | ENSDARP00000142903.1 |
| OG0000002 | ENSDARG00000090371 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000090371.4 | ENSDART00000173403 | ENSDART00000173403.2 | si:dkey-46i9.6 | si:dkey-46i9.6 [Source:ZFIN;Acc:ZDB-GENE-160114-63] | ENSDARP00000142622 | ENSDARP00000142622.1 |
| OG0000002 | ENSDARG00000090371 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000090371.4 | ENSDART00000191494 | ENSDART00000191494.1 | si:dkey-46i9.6 | si:dkey-46i9.6 [Source:ZFIN;Acc:ZDB-GENE-160114-63] | ENSDARP00000146247 | ENSDARP00000146247.1 |
| OG0000002 | ENSDARG00000090371 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000090371.4 | ENSDART00000123429 | ENSDART00000123429.3 | si:dkey-46i9.6 | si:dkey-46i9.6 [Source:ZFIN;Acc:ZDB-GENE-160114-63] | ENSDARP00000111607 | ENSDARP00000111607.2 |
| OG0000002 | ENSDARG00000095113 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000095113.3 | ENSDART00000147632 | ENSDART00000147632.3 | btr04 | bloodthirsty-related gene family, member 4 [Source:ZFIN;Acc:ZDB-GENE-060825-109] | ENSDARP00000116592 | ENSDARP00000116592.2 |
| OG0000002 | ENSDARG00000095113 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000095113.3 | ENSDART00000158569 | ENSDART00000158569.2 | btr04 | bloodthirsty-related gene family, member 4 [Source:ZFIN;Acc:ZDB-GENE-060825-109] | ENSDARP00000133537 | ENSDARP00000133537.2 |
| OG0000002 | ENSDARG00000096304 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000096304.4 | ENSDART00000150896 | ENSDART00000150896.3 | btr31 | bloodthirsty-related gene family, member 31 [Source:ZFIN;Acc:ZDB-GENE-090512-3] | ENSDARP00000126057 | ENSDARP00000126057.1 |
| OG0000002 | ENSDARG00000096304 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000096304.4 | ENSDART00000167596 | ENSDART00000167596.3 | btr31 | bloodthirsty-related gene family, member 31 [Source:ZFIN;Acc:ZDB-GENE-090512-3] | ENSDARP00000140115 | ENSDARP00000140115.1 |
| OG0000002 | ENSDARG00000096304 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000096304.4 | ENSDART00000151557 | ENSDART00000151557.2 | btr31 | bloodthirsty-related gene family, member 31 [Source:ZFIN;Acc:ZDB-GENE-090512-3] | NA | NA |
| OG0000002 | ENSDARG00000096304 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000096304.4 | ENSDART00000151149 | ENSDART00000151149.3 | btr31 | bloodthirsty-related gene family, member 31 [Source:ZFIN;Acc:ZDB-GENE-090512-3] | ENSDARP00000125748 | ENSDARP00000125748.1 |
| OG0000002 | ENSDARG00000099138 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000099138.2 | ENSDART00000159024 | ENSDART00000159024.2 | btr29 | bloodthirsty-related gene family, member 29 [Source:ZFIN;Acc:ZDB-GENE-090512-2] | ENSDARP00000140560 | ENSDARP00000140560.1 |
| OG0000002 | ENSDARG00000099509 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000099509.2 | ENSDART00000169271 | ENSDART00000169271.2 | btr23 | bloodthirsty-related gene family, member 23 [Source:ZFIN;Acc:ZDB-GENE-070705-375] | ENSDARP00000131958 | ENSDARP00000131958.1 |
| OG0000002 | ENSDARG00000100046 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000100046.2 | ENSDART00000160510 | ENSDART00000160510.2 | si:dkey-206d17.15 | si:dkey-206d17.15 [Source:ZFIN;Acc:ZDB-GENE-081031-59] | ENSDARP00000132987 | ENSDARP00000132987.1 |
| OG0000002 | ENSDARG00000100450 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000100450.2 | ENSDART00000168463 | ENSDART00000168463.2 | btr21 | bloodthirsty-related gene family, member 21 [Source:ZFIN;Acc:ZDB-GENE-081031-80] | ENSDARP00000134475 | ENSDARP00000134475.2 |
| OG0000002 | ENSDARG00000100450 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000100450.2 | ENSDART00000170431 | ENSDART00000170431.2 | btr21 | bloodthirsty-related gene family, member 21 [Source:ZFIN;Acc:ZDB-GENE-081031-80] | ENSDARP00000135058 | ENSDARP00000135058.1 |
| OG0000002 | ENSDARG00000100539 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000100539.2 | ENSDART00000170301 | ENSDART00000170301.2 | btr22 | bloodthirsty-related gene family, member 22 [Source:ZFIN;Acc:ZDB-GENE-080402-4] | ENSDARP00000135057 | ENSDARP00000135057.2 |
| OG0000002 | ENSDARG00000100539 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000100539.2 | ENSDART00000162132 | ENSDART00000162132.2 | btr22 | bloodthirsty-related gene family, member 22 [Source:ZFIN;Acc:ZDB-GENE-080402-4] | ENSDARP00000139519 | ENSDARP00000139519.1 |
| OG0000002 | ENSDARG00000100909 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000100909.2 | ENSDART00000160633 | ENSDART00000160633.2 | zgc:173581 | zgc:173581 [Source:ZFIN;Acc:ZDB-GENE-080212-7] | ENSDARP00000133849 | ENSDARP00000133849.2 |
| OG0000002 | ENSDARG00000102018 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000102018.2 | ENSDART00000161676 | ENSDART00000161676.2 | btr25 | bloodthirsty-related gene family, member 25 [Source:ZFIN;Acc:ZDB-GENE-070705-377] | ENSDARP00000141539 | ENSDARP00000141539.1 |
| OG0000002 | ENSDARG00000102018 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000102018.2 | ENSDART00000161804 | ENSDART00000161804.2 | btr25 | bloodthirsty-related gene family, member 25 [Source:ZFIN;Acc:ZDB-GENE-070705-377] | ENSDARP00000135544 | ENSDARP00000135544.1 |
| OG0000002 | ENSDARG00000102018 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000102018.2 | ENSDART00000166773 | ENSDART00000166773.2 | btr25 | bloodthirsty-related gene family, member 25 [Source:ZFIN;Acc:ZDB-GENE-070705-377] | ENSDARP00000135921 | ENSDARP00000135921.1 |
| OG0000002 | ENSDARG00000102018 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000102018.2 | ENSDART00000172424 | ENSDART00000172424.2 | btr25 | bloodthirsty-related gene family, member 25 [Source:ZFIN;Acc:ZDB-GENE-070705-377] | ENSDARP00000130844 | ENSDARP00000130844.1 |
| OG0000002 | ENSDARG00000102018 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000102018.2 | ENSDART00000158309 | ENSDART00000158309.2 | btr25 | bloodthirsty-related gene family, member 25 [Source:ZFIN;Acc:ZDB-GENE-070705-377] | ENSDARP00000137909 | ENSDARP00000137909.1 |
| OG0000002 | ENSDARG00000102143 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000102143.2 | ENSDART00000167084 | ENSDART00000167084.2 | btr24 | bloodthirsty-related gene family, member 24 [Source:ZFIN;Acc:ZDB-GENE-070705-376] | ENSDARP00000135768 | ENSDARP00000135768.1 |
| OG0000002 | ENSDARG00000102143 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000102143.2 | ENSDART00000171802 | ENSDART00000171802.2 | btr24 | bloodthirsty-related gene family, member 24 [Source:ZFIN;Acc:ZDB-GENE-070705-376] | ENSDARP00000135763 | ENSDARP00000135763.1 |
| OG0000002 | ENSDARG00000102143 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000102143.2 | ENSDART00000166368 | ENSDART00000166368.2 | btr24 | bloodthirsty-related gene family, member 24 [Source:ZFIN;Acc:ZDB-GENE-070705-376] | ENSDARP00000141950 | ENSDARP00000141950.2 |
| OG0000002 | ENSDARG00000102913 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000102913.2 | ENSDART00000160358 | ENSDART00000160358.2 | si:dkey-206d17.16 | si:dkey-206d17.16 [Source:ZFIN;Acc:ZDB-GENE-081104-356] | ENSDARP00000135515 | ENSDARP00000135515.1 |
| OG0000002 | ENSDARG00000102992 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000102992.2 | ENSDART00000168433 | ENSDART00000168433.2 | btr20 | bloodthirsty-related gene family, member 20 [Source:ZFIN;Acc:ZDB-GENE-060421-3419] | ENSDARP00000137833 | ENSDARP00000137833.1 |
| OG0000002 | ENSDARG00000103618 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000103618.3 | ENSDART00000165917 | ENSDART00000165917.2 | btr18 | bloodthirsty-related gene family, member 18 [Source:ZFIN;Acc:ZDB-GENE-080213-2] | ENSDARP00000135130 | ENSDARP00000135130.1 |
| OG0000002 | ENSDARG00000103618 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000103618.3 | ENSDART00000172415 | ENSDART00000172415.2 | btr18 | bloodthirsty-related gene family, member 18 [Source:ZFIN;Acc:ZDB-GENE-080213-2] | ENSDARP00000135117 | ENSDARP00000135117.1 |
| OG0000002 | ENSDARG00000105241 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000105241.2 | ENSDART00000158285 | ENSDART00000158285.2 | btr26 | bloodthirsty-related gene family, member 26 [Source:ZFIN;Acc:ZDB-GENE-070705-378] | ENSDARP00000132944 | ENSDARP00000132944.1 |
| OG0000002 | ENSDARG00000105241 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000105241.2 | ENSDART00000163125 | ENSDART00000163125.2 | btr26 | bloodthirsty-related gene family, member 26 [Source:ZFIN;Acc:ZDB-GENE-070705-378] | NA | NA |
| OG0000002 | ENSDARG00000105241 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000105241.2 | ENSDART00000162461 | ENSDART00000162461.2 | btr26 | bloodthirsty-related gene family, member 26 [Source:ZFIN;Acc:ZDB-GENE-070705-378] | ENSDARP00000133734 | ENSDARP00000133734.1 |
| OG0000002 | ENSDARG00000105241 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000105241.2 | ENSDART00000166512 | ENSDART00000166512.2 | btr26 | bloodthirsty-related gene family, member 26 [Source:ZFIN;Acc:ZDB-GENE-070705-378] | ENSDARP00000138446 | ENSDARP00000138446.2 |
| OG0000002 | ENSDARG00000105283 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000105283.2 | ENSDART00000170609 | ENSDART00000170609.2 | btr24 | bloodthirsty-related gene family, member 24 [Source:ZFIN;Acc:ZDB-GENE-070705-376] | ENSDARP00000132651 | ENSDARP00000132651.2 |
| OG0000002 | ENSDARG00000105283 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000105283.2 | ENSDART00000162260 | ENSDART00000162260.2 | btr24 | bloodthirsty-related gene family, member 24 [Source:ZFIN;Acc:ZDB-GENE-070705-376] | ENSDARP00000132421 | ENSDARP00000132421.1 |
| OG0000002 | ENSDARG00000105558 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000105558.3 | ENSDART00000173647 | ENSDART00000173647.2 | btr07 | bloodthirsty-related gene family, member 7 [Source:ZFIN;Acc:ZDB-GENE-110921-1] | ENSDARP00000142705 | ENSDARP00000142705.1 |
| OG0000002 | ENSDARG00000115798 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000115798.1 | ENSDART00000184356 | ENSDART00000184356.1 | btr09 | bloodthirsty-related gene family, member 9 [Source:ZFIN;Acc:ZDB-GENE-080722-46] | ENSDARP00000154313 | ENSDARP00000154313.1 |
| OG0000005 | ENSDARG00000016674 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000016674.11 | ENSDART00000153693 | ENSDART00000153693.2 | FP102888.1 | tripartite motif containing 35-4 [Source:NCBI gene;Acc:100006932] | ENSDARP00000127874 | ENSDARP00000127874.1 |
| OG0000005 | ENSDARG00000022271 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000022271.9 | ENSDART00000036283 | ENSDART00000036283.8 | trim35-34 | tripartite motif containing 35-34 [Source:ZFIN;Acc:ZDB-GENE-081030-23] | ENSDARP00000038024 | ENSDARP00000038024.7 |
| OG0000005 | ENSDARG00000031534 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000031534.7 | ENSDART00000079333 | ENSDART00000079333.4 | CU571315.1 | NA | ENSDARP00000073789 | ENSDARP00000073789.3 |
| OG0000005 | ENSDARG00000033071 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000033071.8 | ENSDART00000142691 | ENSDART00000142691.2 | trim35-10 | tripartite motif containing 35-10 [Source:ZFIN;Acc:ZDB-GENE-091113-36] | ENSDARP00000115816 | ENSDARP00000115816.1 |
| OG0000005 | ENSDARG00000033071 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000033071.8 | ENSDART00000184044 | ENSDART00000184044.1 | trim35-10 | tripartite motif containing 35-10 [Source:ZFIN;Acc:ZDB-GENE-091113-36] | ENSDARP00000151747 | ENSDARP00000151747.1 |
| OG0000005 | ENSDARG00000035009 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000035009.6 | ENSDART00000165856 | ENSDART00000165856.2 | trim35-27 | tripartite motif containing 35-27 [Source:ZFIN;Acc:ZDB-GENE-030131-6185] | ENSDARP00000139665 | ENSDARP00000139665.1 |
| OG0000005 | ENSDARG00000039108 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000039108.9 | ENSDART00000138588 | ENSDART00000138588.3 | trim35-9 | tripartite motif containing 35-9 [Source:ZFIN;Acc:ZDB-GENE-091112-11] | ENSDARP00000118716 | ENSDARP00000118716.2 |
| OG0000005 | ENSDARG00000039108 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000039108.9 | ENSDART00000158699 | ENSDART00000158699.2 | trim35-9 | tripartite motif containing 35-9 [Source:ZFIN;Acc:ZDB-GENE-091112-11] | ENSDARP00000140404 | ENSDARP00000140404.1 |
| OG0000005 | ENSDARG00000040230 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000040230.8 | ENSDART00000151804 | ENSDART00000151804.2 | si:dkey-37m8.11 | si:dkey-37m8.11 [Source:ZFIN;Acc:ZDB-GENE-120214-18] | ENSDARP00000126323 | ENSDARP00000126323.1 |
| OG0000005 | ENSDARG00000042116 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000042116.6 | ENSDART00000061726 | ENSDART00000061726.5 | trim35-40 | tripartite motif containing 35-40 [Source:ZFIN;Acc:ZDB-GENE-030131-6081] | ENSDARP00000061725 | ENSDARP00000061725.4 |
| OG0000005 | ENSDARG00000042116 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000042116.6 | ENSDART00000140360 | ENSDART00000140360.2 | trim35-40 | tripartite motif containing 35-40 [Source:ZFIN;Acc:ZDB-GENE-030131-6081] | NA | NA |
| OG0000005 | ENSDARG00000052097 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000052097.7 | ENSDART00000057464 | ENSDART00000057464.7 | trim35-31 | tripartite motif containing 35-31 [Source:ZFIN;Acc:ZDB-GENE-061009-3] | ENSDARP00000057463 | ENSDARP00000057463.6 |
| OG0000005 | ENSDARG00000052097 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000052097.7 | ENSDART00000176133 | ENSDART00000176133.2 | trim35-31 | tripartite motif containing 35-31 [Source:ZFIN;Acc:ZDB-GENE-061009-3] | ENSDARP00000144276 | ENSDARP00000144276.2 |
| OG0000005 | ENSDARG00000052255 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000052255.6 | ENSDART00000165834 | ENSDART00000165834.2 | trim35-3 | tripartite motif containing 35-3 [Source:ZFIN;Acc:ZDB-GENE-070912-56] | NA | NA |
| OG0000005 | ENSDARG00000052255 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000052255.6 | ENSDART00000074077 | ENSDART00000074077.5 | trim35-3 | tripartite motif containing 35-3 [Source:ZFIN;Acc:ZDB-GENE-070912-56] | ENSDARP00000068566 | ENSDARP00000068566.4 |
| OG0000005 | ENSDARG00000052255 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000052255.6 | ENSDART00000165928 | ENSDART00000165928.2 | trim35-3 | tripartite motif containing 35-3 [Source:ZFIN;Acc:ZDB-GENE-070912-56] | NA | NA |
| OG0000005 | ENSDARG00000052255 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000052255.6 | ENSDART00000193908 | ENSDART00000193908.1 | trim35-3 | tripartite motif containing 35-3 [Source:ZFIN;Acc:ZDB-GENE-070912-56] | ENSDARP00000147837 | ENSDARP00000147837.1 |
| OG0000005 | ENSDARG00000055730 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000055730.7 | ENSDART00000078124 | ENSDART00000078124.6 | trim35-29 | tripartite motif containing 35-29 [Source:ZFIN;Acc:ZDB-GENE-041114-35] | ENSDARP00000072586 | ENSDARP00000072586.5 |
| OG0000005 | ENSDARG00000058958 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000058958.7 | ENSDART00000188808 | ENSDART00000188808.1 | trim35-7 | tripartite motif containing 35-7 [Source:ZFIN;Acc:ZDB-GENE-050522-333] | ENSDARP00000146070 | ENSDARP00000146070.1 |
| OG0000005 | ENSDARG00000058958 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000058958.7 | ENSDART00000187511 | ENSDART00000187511.1 | trim35-7 | tripartite motif containing 35-7 [Source:ZFIN;Acc:ZDB-GENE-050522-333] | ENSDARP00000152276 | ENSDARP00000152276.1 |
| OG0000005 | ENSDARG00000058958 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000058958.7 | ENSDART00000081894 | ENSDART00000081894.7 | trim35-7 | tripartite motif containing 35-7 [Source:ZFIN;Acc:ZDB-GENE-050522-333] | ENSDARP00000076333 | ENSDARP00000076333.6 |
| OG0000005 | ENSDARG00000060838 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000060838.9 | ENSDART00000146662 | ENSDART00000146662.3 | trim35-33 | tripartite motif containing 35-33 [Source:ZFIN;Acc:ZDB-GENE-081031-1] | ENSDARP00000119250 | ENSDARP00000119250.2 |
| OG0000005 | ENSDARG00000060838 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000060838.9 | ENSDART00000186398 | ENSDART00000186398.1 | trim35-33 | tripartite motif containing 35-33 [Source:ZFIN;Acc:ZDB-GENE-081031-1] | ENSDARP00000153058 | ENSDARP00000153058.1 |
| OG0000005 | ENSDARG00000070847 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000070847.7 | ENSDART00000036273 | ENSDART00000036273.8 | trim35-20 | tripartite motif containing 35-20 [Source:ZFIN;Acc:ZDB-GENE-110920-8] | ENSDARP00000037611 | ENSDARP00000037611.7 |
| OG0000005 | ENSDARG00000071241 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000071241.4 | ENSDART00000082154 | ENSDART00000082154.5 | trim35-39 | tripartite motif containing 35-39 [Source:ZFIN;Acc:ZDB-GENE-080219-13] | ENSDARP00000076591 | ENSDARP00000076591.4 |
| OG0000005 | ENSDARG00000092407 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000092407.3 | ENSDART00000135053 | ENSDART00000135053.3 | zmp:0000001316 | zmp:0000001316 [Source:ZFIN;Acc:ZDB-GENE-140106-276] | ENSDARP00000117540 | ENSDARP00000117540.2 |
| OG0000005 | ENSDARG00000093859 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000093859.4 | ENSDART00000074105 | ENSDART00000074105.6 | CU137686.1 | NA | ENSDARP00000068594 | ENSDARP00000068594.6 |
| OG0000005 | ENSDARG00000095913 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000095913.4 | ENSDART00000149093 | ENSDART00000149093.3 | CU861903.1 | tripartite motif containing 35-44 [Source:NCBI gene;Acc:100002639] | ENSDARP00000124334 | ENSDARP00000124334.1 |
| OG0000005 | ENSDARG00000099639 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000099639.2 | ENSDART00000170642 | ENSDART00000170642.2 | trim35-19 | tripartite motif containing 35-19 [Source:ZFIN;Acc:ZDB-GENE-070424-178] | ENSDARP00000132360 | ENSDARP00000132360.1 |
| OG0000005 | ENSDARG00000099684 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000099684.2 | ENSDART00000163714 | ENSDART00000163714.2 | trim35-24 | tripartite motif containing 35-24 [Source:ZFIN;Acc:ZDB-GENE-060421-8366] | ENSDARP00000133555 | ENSDARP00000133555.1 |
| OG0000005 | ENSDARG00000100373 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000100373.2 | ENSDART00000169673 | ENSDART00000169673.2 | si:ch211-175l6.1 | si:ch211-175l6.1 [Source:ZFIN;Acc:ZDB-GENE-060503-861] | ENSDARP00000133969 | ENSDARP00000133969.1 |
| OG0000005 | ENSDARG00000100429 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000100429.2 | ENSDART00000184589 | ENSDART00000184589.1 | irgf4 | immunity-related GTPase family, f4 [Source:ZFIN;Acc:ZDB-GENE-060929-404] | ENSDARP00000156472 | ENSDARP00000156472.1 |
| OG0000005 | ENSDARG00000100429 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000100429.2 | ENSDART00000165671 | ENSDART00000165671.2 | irgf4 | immunity-related GTPase family, f4 [Source:ZFIN;Acc:ZDB-GENE-060929-404] | ENSDARP00000131542 | ENSDARP00000131542.1 |
| OG0000005 | ENSDARG00000100721 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000100721.2 | ENSDART00000172256 | ENSDART00000172256.2 | si:ch211-175l6.2 | si:ch211-175l6.2 [Source:ZFIN;Acc:ZDB-GENE-060503-108] | ENSDARP00000136897 | ENSDARP00000136897.1 |
| OG0000005 | ENSDARG00000100721 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000100721.2 | ENSDART00000167877 | ENSDART00000167877.2 | si:ch211-175l6.2 | si:ch211-175l6.2 [Source:ZFIN;Acc:ZDB-GENE-060503-108] | ENSDARP00000136774 | ENSDARP00000136774.2 |
| OG0000005 | ENSDARG00000101055 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000101055.2 | ENSDART00000159710 | ENSDART00000159710.2 | trim35-25 | tripartite motif containing 35-25 [Source:ZFIN;Acc:ZDB-GENE-060503-484] | ENSDARP00000131341 | ENSDARP00000131341.1 |
| OG0000005 | ENSDARG00000101055 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000101055.2 | ENSDART00000167201 | ENSDART00000167201.2 | trim35-25 | tripartite motif containing 35-25 [Source:ZFIN;Acc:ZDB-GENE-060503-484] | ENSDARP00000134771 | ENSDARP00000134771.1 |
| OG0000005 | ENSDARG00000102219 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000102219.2 | ENSDART00000157707 | ENSDART00000157707.2 | si:ch211-12p12.2 | si:ch211-12p12.2 [Source:ZFIN;Acc:ZDB-GENE-131125-5] | ENSDARP00000130141 | ENSDARP00000130141.1 |
| OG0000005 | ENSDARG00000102219 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000102219.2 | ENSDART00000185055 | ENSDART00000185055.1 | si:ch211-12p12.2 | si:ch211-12p12.2 [Source:ZFIN;Acc:ZDB-GENE-131125-5] | ENSDARP00000146244 | ENSDARP00000146244.1 |
| OG0000005 | ENSDARG00000102264 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000102264.2 | ENSDART00000144459 | ENSDART00000144459.3 | trim35-22 | tripartite motif containing 35-22 [Source:ZFIN;Acc:ZDB-GENE-060503-201] | ENSDARP00000122883 | ENSDARP00000122883.2 |
| OG0000005 | ENSDARG00000102303 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000102303.2 | ENSDART00000161400 | ENSDART00000161400.2 | trim35-21 | tripartite motif containing 35-21 [Source:ZFIN;Acc:ZDB-GENE-060503-673] | ENSDARP00000136209 | ENSDARP00000136209.1 |
| OG0000005 | ENSDARG00000102368 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000102368.2 | ENSDART00000159801 | ENSDART00000159801.2 | trim35-23 | tripartite motif containing 35-23 [Source:ZFIN;Acc:ZDB-GENE-060503-295] | ENSDARP00000134049 | ENSDARP00000134049.1 |
| OG0000005 | ENSDARG00000103154 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000103154.2 | ENSDART00000161931 | ENSDART00000161931.2 | si:ch73-144l3.1 | si:ch73-144l3.1 [Source:ZFIN;Acc:ZDB-GENE-131119-96] | ENSDARP00000139173 | ENSDARP00000139173.1 |
| OG0000005 | ENSDARG00000103154 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000103154.2 | ENSDART00000193394 | ENSDART00000193394.1 | si:ch73-144l3.1 | si:ch73-144l3.1 [Source:ZFIN;Acc:ZDB-GENE-131119-96] | ENSDARP00000150966 | ENSDARP00000150966.1 |
| OG0000005 | ENSDARG00000104825 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000104825.2 | ENSDART00000159308 | ENSDART00000159308.2 | trim35-7 | tripartite motif containing 35-7 [Source:ZFIN;Acc:ZDB-GENE-050522-333] | ENSDARP00000135689 | ENSDARP00000135689.1 |
| OG0000005 | ENSDARG00000109698 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000109698.1 | ENSDART00000180553 | ENSDART00000180553.1 | trim35-19 | tripartite motif containing 35-19 [Source:ZFIN;Acc:ZDB-GENE-070424-178] | ENSDARP00000155453 | ENSDARP00000155453.1 |
| OG0000005 | ENSDARG00000111097 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000111097.1 | ENSDART00000031885 | ENSDART00000031885.8 | si:ch73-106l15.2 | si:ch73-106l15.2 [Source:ZFIN;Acc:ZDB-GENE-131119-94] | ENSDARP00000033888 | ENSDARP00000033888.7 |
| OG0000005 | ENSDARG00000111097 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000111097.1 | ENSDART00000181938 | ENSDART00000181938.1 | si:ch73-106l15.2 | si:ch73-106l15.2 [Source:ZFIN;Acc:ZDB-GENE-131119-94] | ENSDARP00000145913 | ENSDARP00000145913.1 |
| OG0000005 | ENSDARG00000111232 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000111232.1 | ENSDART00000086146 | ENSDART00000086146.7 | trim35-31 | tripartite motif containing 35-31 [Source:ZFIN;Acc:ZDB-GENE-061009-3] | ENSDARP00000080581 | ENSDARP00000080581.7 |
| OG0000005 | ENSDARG00000112845 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000112845.1 | ENSDART00000186953 | ENSDART00000186953.1 | BX000704.1 | NA | ENSDARP00000149356 | ENSDARP00000149356.1 |
| OG0000005 | ENSDARG00000112972 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000112972.1 | ENSDART00000188209 | ENSDART00000188209.1 | BX000704.2 | si:ch211-175l6.2 [Source:NCBI gene;Acc:561314] | ENSDARP00000156832 | ENSDARP00000156832.1 |
| OG0000005 | ENSDARG00000113611 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000113611.1 | ENSDART00000189466 | ENSDART00000189466.1 | trim35-23 | tripartite motif containing 35-23 [Source:ZFIN;Acc:ZDB-GENE-060503-295] | ENSDARP00000155569 | ENSDARP00000155569.1 |
| OG0000005 | ENSDARG00000113611 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000113611.1 | ENSDART00000182000 | ENSDART00000182000.1 | trim35-23 | tripartite motif containing 35-23 [Source:ZFIN;Acc:ZDB-GENE-060503-295] | ENSDARP00000145473 | ENSDARP00000145473.1 |
| OG0000005 | ENSDARG00000114099 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000114099.1 | ENSDART00000062166 | ENSDART00000062166.5 | trim35-30 | tripartite motif containing 35-30 [Source:ZFIN;Acc:ZDB-GENE-060503-557] | ENSDARP00000062165 | ENSDARP00000062165.4 |
| OG0000005 | ENSDARG00000114154 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000114154.1 | ENSDART00000193319 | ENSDART00000193319.1 | trim35-24 | tripartite motif containing 35-24 [Source:ZFIN;Acc:ZDB-GENE-060421-8366] | ENSDARP00000155921 | ENSDARP00000155921.1 |
| OG0000005 | ENSDARG00000114575 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000114575.1 | ENSDART00000185760 | ENSDART00000185760.1 | si:dkey-37m8.11 | si:dkey-37m8.11 [Source:ZFIN;Acc:ZDB-GENE-120214-18] | ENSDARP00000157191 | ENSDARP00000157191.1 |
| OG0000005 | ENSDARG00000114946 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000114946.1 | ENSDART00000192355 | ENSDART00000192355.1 | BX000704.3 | tripartite motif-containing protein 35-like [Source:NCBI gene;Acc:110437850] | ENSDARP00000152479 | ENSDARP00000152479.1 |
| OG0000005 | ENSDARG00000114946 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000114946.1 | ENSDART00000183286 | ENSDART00000183286.1 | BX000704.3 | tripartite motif-containing protein 35-like [Source:NCBI gene;Acc:110437850] | ENSDARP00000152241 | ENSDARP00000152241.1 |
| OG0000005 | ENSDARG00000115567 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000115567.1 | ENSDART00000189938 | ENSDART00000189938.1 | trim35-20 | tripartite motif containing 35-20 [Source:ZFIN;Acc:ZDB-GENE-110920-8] | ENSDARP00000146338 | ENSDARP00000146338.1 |
| OG0000006 | ENSDARG00000015607 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000015607.11 | ENSDART00000183990 | ENSDART00000183990.1 | si:ch211-220f21.2 | si:ch211-220f21.2 [Source:ZFIN;Acc:ZDB-GENE-160113-17] | ENSDARP00000146927 | ENSDARP00000146927.1 |
| OG0000006 | ENSDARG00000015607 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000015607.11 | ENSDART00000159251 | ENSDART00000159251.2 | si:ch211-220f21.2 | si:ch211-220f21.2 [Source:ZFIN;Acc:ZDB-GENE-160113-17] | ENSDARP00000136002 | ENSDARP00000136002.2 |
| OG0000006 | ENSDARG00000015607 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000015607.11 | ENSDART00000173299 | ENSDART00000173299.2 | si:ch211-220f21.2 | si:ch211-220f21.2 [Source:ZFIN;Acc:ZDB-GENE-160113-17] | ENSDARP00000142075 | ENSDARP00000142075.1 |
| OG0000006 | ENSDARG00000028912 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000028912.10 | ENSDART00000134367 | ENSDART00000134367.3 | si:dkey-10h3.2 | si:dkey-10h3.2 [Source:ZFIN;Acc:ZDB-GENE-060503-142] | ENSDARP00000115761 | ENSDARP00000115761.2 |
| OG0000006 | ENSDARG00000029838 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000029838.9 | ENSDART00000181693 | ENSDART00000181693.1 | si:dkey-23a13.11 | si:dkey-23a13.11 [Source:ZFIN;Acc:ZDB-GENE-160113-14] | ENSDARP00000149776 | ENSDARP00000149776.1 |
| OG0000006 | ENSDARG00000029838 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000029838.9 | ENSDART00000173208 | ENSDART00000173208.2 | si:dkey-23a13.11 | si:dkey-23a13.11 [Source:ZFIN;Acc:ZDB-GENE-160113-14] | ENSDARP00000142600 | ENSDARP00000142600.1 |
| OG0000006 | ENSDARG00000058564 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000058564.7 | ENSDART00000173144 | ENSDART00000173144.2 | si:ch73-368j24.17 | si:ch73-368j24.17 [Source:ZFIN;Acc:ZDB-GENE-160113-31] | ENSDARP00000142097 | ENSDARP00000142097.1 |
| OG0000006 | ENSDARG00000070065 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000070065.6 | ENSDART00000172931 | ENSDART00000172931.2 | si:ch211-163c2.2 | si:ch211-163c2.2 [Source:ZFIN;Acc:ZDB-GENE-160114-56] | ENSDARP00000142466 | ENSDARP00000142466.1 |
| OG0000006 | ENSDARG00000074818 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000074818.5 | ENSDART00000173320 | ENSDART00000173320.2 | si:cabz01036022.1 | si:cabz01036022.1 [Source:ZFIN;Acc:ZDB-GENE-160113-144] | ENSDARP00000142467 | ENSDARP00000142467.1 |
| OG0000006 | ENSDARG00000093987 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000093987.3 | ENSDART00000131383 | ENSDART00000131383.3 | si:ch211-165f21.7 | si:ch211-165f21.7 [Source:ZFIN;Acc:ZDB-GENE-070912-139] | ENSDARP00000119324 | ENSDARP00000119324.2 |
| OG0000006 | ENSDARG00000094374 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000094374.5 | ENSDART00000143767 | ENSDART00000143767.3 | si:ch211-165f21.2 | si:ch211-165f21.2 [Source:ZFIN;Acc:ZDB-GENE-060503-12] | ENSDARP00000121816 | ENSDARP00000121816.2 |
| OG0000006 | ENSDARG00000095068 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000095068.3 | ENSDART00000144927 | ENSDART00000144927.3 | si:dkey-10h3.3 | si:dkey-10h3.3 [Source:ZFIN;Acc:ZDB-GENE-060503-236] | ENSDARP00000113430 | ENSDARP00000113430.2 |
| OG0000006 | ENSDARG00000095133 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000095133.5 | ENSDART00000138572 | ENSDART00000138572.3 | si:ch211-165f21.2 | si:ch211-165f21.2 [Source:ZFIN;Acc:ZDB-GENE-060503-12] | ENSDARP00000115395 | ENSDARP00000115395.2 |
| OG0000006 | ENSDARG00000097331 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000097331.2 | ENSDART00000154017 | ENSDART00000154017.2 | si:dkey-170g13.2 | si:dkey-170g13.2 [Source:ZFIN;Acc:ZDB-GENE-131121-388] | ENSDARP00000128102 | ENSDARP00000128102.1 |
| OG0000006 | ENSDARG00000098570 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000098570.2 | ENSDART00000157672 | ENSDART00000157672.2 | si:ch211-8c17.2 | si:ch211-8c17.2 [Source:ZFIN;Acc:ZDB-GENE-091204-254] | ENSDARP00000139483 | ENSDARP00000139483.1 |
| OG0000006 | ENSDARG00000098570 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000098570.2 | ENSDART00000160552 | ENSDART00000160552.2 | si:ch211-8c17.2 | si:ch211-8c17.2 [Source:ZFIN;Acc:ZDB-GENE-091204-254] | ENSDARP00000132187 | ENSDARP00000132187.1 |
| OG0000006 | ENSDARG00000102230 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000102230.2 | ENSDART00000166089 | ENSDART00000166089.2 | si:ch211-8c17.3 | si:ch211-8c17.3 [Source:ZFIN;Acc:ZDB-GENE-091204-353] | ENSDARP00000140805 | ENSDARP00000140805.1 |
| OG0000006 | ENSDARG00000103555 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000103555.2 | ENSDART00000166689 | ENSDART00000166689.2 | si:ch211-8c17.4 | si:ch211-8c17.4 [Source:ZFIN;Acc:ZDB-GENE-091204-107] | ENSDARP00000141596 | ENSDARP00000141596.1 |
| OG0000006 | ENSDARG00000105372 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000105372.2 | ENSDART00000173173 | ENSDART00000173173.2 | si:ch211-220f21.1 | si:ch211-220f21.1 [Source:ZFIN;Acc:ZDB-GENE-160113-32] | ENSDARP00000142414 | ENSDARP00000142414.1 |
| OG0000006 | ENSDARG00000105379 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000105379.2 | ENSDART00000173397 | ENSDART00000173397.2 | si:ch211-220f21.3 | si:ch211-220f21.3 [Source:ZFIN;Acc:ZDB-GENE-160113-57] | ENSDARP00000142488 | ENSDARP00000142488.1 |
| OG0000006 | ENSDARG00000105455 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000105455.2 | ENSDART00000173170 | ENSDART00000173170.2 | si:dkey-10h3.7 | si:dkey-10h3.7 [Source:ZFIN;Acc:ZDB-GENE-160113-56] | ENSDARP00000142259 | ENSDARP00000142259.1 |
| OG0000006 | ENSDARG00000105470 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000105470.2 | ENSDART00000172908 | ENSDART00000172908.2 | si:dkey-23a13.2 | si:dkey-23a13.2 [Source:ZFIN;Acc:ZDB-GENE-160113-96] | ENSDARP00000142200 | ENSDARP00000142200.1 |
| OG0000006 | ENSDARG00000105473 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000105473.2 | ENSDART00000173003 | ENSDART00000173003.2 | si:cabz01036006.1 | si:cabz01036006.1 [Source:ZFIN;Acc:ZDB-GENE-160113-146] | ENSDARP00000142120 | ENSDARP00000142120.1 |
| OG0000006 | ENSDARG00000105473 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000105473.2 | ENSDART00000189160 | ENSDART00000189160.1 | si:cabz01036006.1 | si:cabz01036006.1 [Source:ZFIN;Acc:ZDB-GENE-160113-146] | ENSDARP00000149610 | ENSDARP00000149610.1 |
| OG0000006 | ENSDARG00000110349 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000110349.1 | ENSDART00000158649 | ENSDART00000158649.2 | si:ch211-8c17.2 | si:ch211-8c17.2 [Source:ZFIN;Acc:ZDB-GENE-091204-254] | ENSDARP00000136575 | ENSDARP00000136575.2 |
| OG0000007 | ENSDARG00000018587 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000018587.9 | ENSDART00000101640 | ENSDART00000101640.4 | zgc:152658 | zgc:152658 [Source:ZFIN;Acc:ZDB-GENE-060929-68] | ENSDARP00000092414 | ENSDARP00000092414.3 |
| OG0000007 | ENSDARG00000035088 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000035088.9 | ENSDART00000136467 | ENSDART00000136467.2 | si:ch211-254c8.3 | si:ch211-254c8.3 [Source:ZFIN;Acc:ZDB-GENE-100922-130] | ENSDARP00000114442 | ENSDARP00000114442.1 |
| OG0000007 | ENSDARG00000035088 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000035088.9 | ENSDART00000036445 | ENSDART00000036445.9 | si:ch211-254c8.3 | si:ch211-254c8.3 [Source:ZFIN;Acc:ZDB-GENE-100922-130] | ENSDARP00000035009 | ENSDARP00000035009.9 |
| OG0000007 | ENSDARG00000040497 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000040497.6 | ENSDART00000059271 | ENSDART00000059271.6 | BX004816.1 | GTPase IMAP family member 4-like [Source:NCBI gene;Acc:571124] | ENSDARP00000059270 | ENSDARP00000059270.5 |
| OG0000007 | ENSDARG00000052876 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000052876.5 | ENSDART00000074811 | ENSDART00000074811.5 | CR933791.2 | GTPase IMAP family member 7-like [Source:NCBI gene;Acc:799889] | ENSDARP00000069297 | ENSDARP00000069297.4 |
| OG0000007 | ENSDARG00000052900 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000052900.4 | ENSDART00000093269 | ENSDART00000093269.4 | zgc:153642 | zgc:153642 [Source:ZFIN;Acc:ZDB-GENE-061013-527] | ENSDARP00000087701 | ENSDARP00000087701.3 |
| OG0000007 | ENSDARG00000054160 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000054160.7 | ENSDART00000109020 | ENSDART00000109020.4 | zgc:113625 | zgc:113625 [Source:ZFIN;Acc:ZDB-GENE-050320-47] | ENSDARP00000102372 | ENSDARP00000102372.3 |
| OG0000007 | ENSDARG00000054160 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000054160.7 | ENSDART00000141329 | ENSDART00000141329.2 | zgc:113625 | zgc:113625 [Source:ZFIN;Acc:ZDB-GENE-050320-47] | ENSDARP00000113060 | ENSDARP00000113060.1 |
| OG0000007 | ENSDARG00000054160 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000054160.7 | ENSDART00000076316 | ENSDART00000076316.6 | zgc:113625 | zgc:113625 [Source:ZFIN;Acc:ZDB-GENE-050320-47] | ENSDARP00000070791 | ENSDARP00000070791.4 |
| OG0000007 | ENSDARG00000054548 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000054548.7 | ENSDART00000150047 | ENSDART00000150047.2 | si:ch73-285p12.4 | si:ch73-285p12.4 [Source:ZFIN;Acc:ZDB-GENE-110411-145] | ENSDARP00000124585 | ENSDARP00000124585.1 |
| OG0000007 | ENSDARG00000063108 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000063108.6 | ENSDART00000091924 | ENSDART00000091924.6 | CABZ01059392.1 | uncharacterized LOC100334305 [Source:NCBI gene;Acc:100334305] | ENSDARP00000086357 | ENSDARP00000086357.5 |
| OG0000007 | ENSDARG00000069707 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000069707.6 | ENSDART00000136849 | ENSDART00000136849.2 | si:ch211-113e8.5 | si:ch211-113e8.5 [Source:ZFIN;Acc:ZDB-GENE-090312-189] | ENSDARP00000120396 | ENSDARP00000120396.1 |
| OG0000007 | ENSDARG00000069707 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000069707.6 | ENSDART00000179679 | ENSDART00000179679.1 | si:ch211-113e8.5 | si:ch211-113e8.5 [Source:ZFIN;Acc:ZDB-GENE-090312-189] | ENSDARP00000157129 | ENSDARP00000157129.1 |
| OG0000007 | ENSDARG00000070516 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000070516.7 | ENSDART00000149684 | ENSDART00000149684.3 | si:dkeyp-52c3.2 | si:dkeyp-52c3.2 [Source:ZFIN;Acc:ZDB-GENE-110411-46] | ENSDARP00000126502 | ENSDARP00000126502.2 |
| OG0000007 | ENSDARG00000074069 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000074069.2 | ENSDART00000097964 | ENSDART00000097964.3 | zgc:171452 | zgc:171452 [Source:ZFIN;Acc:ZDB-GENE-071004-84] | ENSDARP00000088737 | ENSDARP00000088737.2 |
| OG0000007 | ENSDARG00000074205 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000074205.5 | ENSDART00000152571 | ENSDART00000152571.3 | si:dkey-1c7.3 | si:dkey-1c7.3 [Source:ZFIN;Acc:ZDB-GENE-121214-189] | ENSDARP00000126657 | ENSDARP00000126657.2 |
| OG0000007 | ENSDARG00000074610 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000074610.5 | ENSDART00000133738 | ENSDART00000133738.2 | si:ch211-113e8.6 | si:ch211-113e8.6 [Source:ZFIN;Acc:ZDB-GENE-090313-13] | ENSDARP00000122694 | ENSDARP00000122694.1 |
| OG0000007 | ENSDARG00000075173 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000075173.5 | ENSDART00000132817 | ENSDART00000132817.2 | si:ch1073-322p19.1 | si:ch1073-322p19.1 [Source:ZFIN;Acc:ZDB-GENE-091204-224] | ENSDARP00000122335 | ENSDARP00000122335.1 |
| OG0000007 | ENSDARG00000076573 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000076573.5 | ENSDART00000135249 | ENSDART00000135249.2 | si:dkey-88j15.3 | si:dkey-88j15.3 [Source:ZFIN;Acc:ZDB-GENE-100922-28] | ENSDARP00000142350 | ENSDARP00000142350.1 |
| OG0000007 | ENSDARG00000078182 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000078182.4 | ENSDART00000138072 | ENSDART00000138072.3 | zgc:194443 | zgc:194443 [Source:ZFIN;Acc:ZDB-GENE-080723-6] | ENSDARP00000120336 | ENSDARP00000120336.1 |
| OG0000007 | ENSDARG00000078182 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000078182.4 | ENSDART00000074953 | ENSDART00000074953.3 | zgc:194443 | zgc:194443 [Source:ZFIN;Acc:ZDB-GENE-080723-6] | ENSDARP00000069439 | ENSDARP00000069439.2 |
| OG0000007 | ENSDARG00000079471 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000079471.5 | ENSDART00000141464 | ENSDART00000141464.2 | si:dkey-88j15.4 | si:dkey-88j15.4 [Source:ZFIN;Acc:ZDB-GENE-100922-55] | ENSDARP00000122713 | ENSDARP00000122713.1 |
| OG0000007 | ENSDARG00000087012 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000087012.3 | ENSDART00000122435 | ENSDART00000122435.3 | BX004816.2 | NA | ENSDARP00000108758 | ENSDARP00000108758.3 |
| OG0000007 | ENSDARG00000088906 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000088906.3 | ENSDART00000188665 | ENSDART00000188665.1 | CABZ01059403.1 | NA | ENSDARP00000146065 | ENSDARP00000146065.1 |
| OG0000007 | ENSDARG00000088906 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000088906.3 | ENSDART00000189181 | ENSDART00000189181.1 | CABZ01059403.1 | NA | ENSDARP00000154782 | ENSDARP00000154782.1 |
| OG0000007 | ENSDARG00000088906 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000088906.3 | ENSDART00000129864 | ENSDART00000129864.3 | CABZ01059403.1 | NA | ENSDARP00000109444 | ENSDARP00000109444.2 |
| OG0000007 | ENSDARG00000093082 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000093082.3 | ENSDART00000133693 | ENSDART00000133693.3 | LO018605.1 | NA | ENSDARP00000119952 | ENSDARP00000119952.3 |
| OG0000007 | ENSDARG00000095065 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000095065.5 | ENSDART00000142521 | ENSDART00000142521.2 | si:ch211-113e8.9 | si:ch211-113e8.9 [Source:ZFIN;Acc:ZDB-GENE-090313-14] | NA | NA |
| OG0000007 | ENSDARG00000095065 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000095065.5 | ENSDART00000145694 | ENSDART00000145694.3 | si:ch211-113e8.9 | si:ch211-113e8.9 [Source:ZFIN;Acc:ZDB-GENE-090313-14] | ENSDARP00000126349 | ENSDARP00000126349.1 |
| OG0000007 | ENSDARG00000095065 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000095065.5 | ENSDART00000136508 | ENSDART00000136508.3 | si:ch211-113e8.9 | si:ch211-113e8.9 [Source:ZFIN;Acc:ZDB-GENE-090313-14] | NA | NA |
| OG0000007 | ENSDARG00000095065 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000095065.5 | ENSDART00000138886 | ENSDART00000138886.4 | si:ch211-113e8.9 | si:ch211-113e8.9 [Source:ZFIN;Acc:ZDB-GENE-090313-14] | ENSDARP00000126439 | ENSDARP00000126439.1 |
| OG0000007 | ENSDARG00000095076 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000095076.4 | ENSDART00000004273 | ENSDART00000004273.10 | si:dkey-73p2.3 | si:dkey-73p2.3 [Source:ZFIN;Acc:ZDB-GENE-131126-12] | ENSDARP00000005646 | ENSDARP00000005646.8 |
| OG0000007 | ENSDARG00000095739 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000095739.3 | ENSDART00000101636 | ENSDART00000101636.4 | si:dkey-73p2.1 | si:dkey-73p2.1 [Source:ZFIN;Acc:ZDB-GENE-131122-97] | ENSDARP00000092410 | ENSDARP00000092410.2 |
| OG0000007 | ENSDARG00000099508 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000099508.2 | ENSDART00000158530 | ENSDART00000158530.2 | CABZ01049362.1 | NA | ENSDARP00000132238 | ENSDARP00000132238.1 |
| OG0000007 | ENSDARG00000099678 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000099678.2 | ENSDART00000161612 | ENSDART00000161612.2 | BX569789.1 | GTPase IMAP family member 4-like [Source:NCBI gene;Acc:571582] | ENSDARP00000134221 | ENSDARP00000134221.1 |
| OG0000007 | ENSDARG00000100199 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000100199.2 | ENSDART00000172281 | ENSDART00000172281.2 | si:ch1073-185p12.2 | si:ch1073-185p12.2 [Source:ZFIN;Acc:ZDB-GENE-110411-196] | ENSDARP00000138349 | ENSDARP00000138349.1 |
| OG0000007 | ENSDARG00000100199 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000100199.2 | ENSDART00000186262 | ENSDART00000186262.1 | si:ch1073-185p12.2 | si:ch1073-185p12.2 [Source:ZFIN;Acc:ZDB-GENE-110411-196] | ENSDARP00000150717 | ENSDARP00000150717.1 |
| OG0000007 | ENSDARG00000102497 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000102497.2 | ENSDART00000020237 | ENSDART00000020237.9 | si:ch211-113e8.6 | si:ch211-113e8.6 [Source:ZFIN;Acc:ZDB-GENE-090313-13] | ENSDARP00000025704 | ENSDARP00000025704.9 |
| OG0000007 | ENSDARG00000103058 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000103058.2 | ENSDART00000165673 | ENSDART00000165673.2 | zgc:172091 | zgc:172091 [Source:ZFIN;Acc:ZDB-GENE-080204-41] | ENSDARP00000140328 | ENSDARP00000140328.1 |
| OG0000007 | ENSDARG00000103883 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000103883.2 | ENSDART00000137708 | ENSDART00000137708.3 | si:ch1073-181h11.2 | si:ch1073-181h11.2 [Source:ZFIN;Acc:ZDB-GENE-081031-58] | ENSDARP00000114839 | ENSDARP00000114839.3 |
| OG0000007 | ENSDARG00000103883 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000103883.2 | ENSDART00000171017 | ENSDART00000171017.2 | si:ch1073-181h11.2 | si:ch1073-181h11.2 [Source:ZFIN;Acc:ZDB-GENE-081031-58] | ENSDARP00000137192 | ENSDARP00000137192.1 |
| OG0000007 | ENSDARG00000104284 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000104284.2 | ENSDART00000157727 | ENSDART00000157727.2 | CABZ01049361.1 | GTPase IMAP family member 4-like [Source:NCBI gene;Acc:100149227] | ENSDARP00000136246 | ENSDARP00000136246.1 |
| OG0000007 | ENSDARG00000109228 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000109228.1 | ENSDART00000192871 | ENSDART00000192871.1 | FO680692.1 | NA | ENSDARP00000151617 | ENSDARP00000151617.1 |
| OG0000007 | ENSDARG00000109438 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000109438.1 | ENSDART00000191987 | ENSDART00000191987.1 | AL953865.1 | NA | ENSDARP00000155840 | ENSDARP00000155840.1 |
| OG0000007 | ENSDARG00000110536 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000110536.1 | ENSDART00000181788 | ENSDART00000181788.1 | zgc:194443 | zgc:194443 [Source:ZFIN;Acc:ZDB-GENE-080723-6] | ENSDARP00000154249 | ENSDARP00000154249.1 |
| OG0000007 | ENSDARG00000111314 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000111314.1 | ENSDART00000180846 | ENSDART00000180846.1 | zgc:152658 | zgc:152658 [Source:ZFIN;Acc:ZDB-GENE-060929-68] | ENSDARP00000146330 | ENSDARP00000146330.1 |
| OG0000007 | ENSDARG00000111949 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000111949.1 | ENSDART00000193936 | ENSDART00000193936.1 | BX005442.3 | NA | ENSDARP00000153011 | ENSDARP00000153011.1 |
| OG0000007 | ENSDARG00000112569 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000112569.1 | ENSDART00000185454 | ENSDART00000185454.1 | BX321875.3 | NA | ENSDARP00000150363 | ENSDARP00000150363.1 |
| OG0000007 | ENSDARG00000112755 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000112755.1 | ENSDART00000180266 | ENSDART00000180266.1 | CR394546.4 | GTPase IMAP family member 4-like [Source:NCBI gene;Acc:100333355] | ENSDARP00000145350 | ENSDARP00000145350.1 |
| OG0000007 | ENSDARG00000115164 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000115164.1 | ENSDART00000193361 | ENSDART00000193361.1 | CABZ01059407.1 | NA | ENSDARP00000148630 | ENSDARP00000148630.1 |
| OG0000007 | ENSDARG00000115941 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000115941.1 | ENSDART00000192309 | ENSDART00000192309.1 | LO018551.1 | GTPase IMAP family member 7-like [Source:NCBI gene;Acc:110437776] | ENSDARP00000148520 | ENSDARP00000148520.1 |
| OG0000007 | ENSDARG00000116893 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000116893.1 | ENSDART00000189404 | ENSDART00000189404.1 | BX005442.4 | NA | ENSDARP00000156745 | ENSDARP00000156745.1 |
| OG0000007 | ENSDARG00000116928 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000116928.1 | ENSDART00000188760 | ENSDART00000188760.1 | CABZ01059408.1 | NA | ENSDARP00000156199 | ENSDARP00000156199.1 |
| OG0000007 | ENSDARG00000117179 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000117179.1 | ENSDART00000183570 | ENSDART00000183570.1 | FP326649.1 | GTPase IMAP family member 7-like [Source:NCBI gene;Acc:100537396] | ENSDARP00000150081 | ENSDARP00000150081.1 |
| OG0000007 | ENSDARG00000117179 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000117179.1 | ENSDART00000187375 | ENSDART00000187375.1 | FP326649.1 | GTPase IMAP family member 7-like [Source:NCBI gene;Acc:100537396] | ENSDARP00000150442 | ENSDARP00000150442.1 |
| OG0000008 | ENSDARG00000008095 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000008095.12 | ENSDART00000028134 | ENSDART00000028134.11 | olfcd1 | olfactory receptor C family, d1 [Source:ZFIN;Acc:ZDB-GENE-100721-9] | ENSDARP00000002848 | ENSDARP00000002848.10 |
| OG0000008 | ENSDARG00000040632 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000040632.6 | ENSDART00000019233 | ENSDART00000019233.8 | olfcu1 | olfactory receptor C family, u1 [Source:ZFIN;Acc:ZDB-GENE-050419-175] | ENSDARP00000026867 | ENSDARP00000026867.7 |
| OG0000008 | ENSDARG00000055952 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000055952.7 | ENSDART00000133386 | ENSDART00000133386.2 | olfcx2 | olfactory receptor C family, x2 [Source:ZFIN;Acc:ZDB-GENE-050419-39] | ENSDARP00000116880 | ENSDARP00000116880.1 |
| OG0000008 | ENSDARG00000056154 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000056154.7 | ENSDART00000137856 | ENSDART00000137856.2 | olfcx3 | olfactory receptor C family, x3 [Source:ZFIN;Acc:ZDB-GENE-050419-129] | ENSDARP00000120941 | ENSDARP00000120941.1 |
| OG0000008 | ENSDARG00000056154 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000056154.7 | ENSDART00000099130 | ENSDART00000099130.5 | olfcx3 | olfactory receptor C family, x3 [Source:ZFIN;Acc:ZDB-GENE-050419-129] | ENSDARP00000089904 | ENSDARP00000089904.4 |
| OG0000008 | ENSDARG00000056180 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000056180.7 | ENSDART00000132758 | ENSDART00000132758.2 | olfck1 | olfactory receptor C family, k1 [Source:ZFIN;Acc:ZDB-GENE-050419-130] | ENSDARP00000112572 | ENSDARP00000112572.1 |
| OG0000008 | ENSDARG00000061873 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000061873.7 | ENSDART00000137208 | ENSDART00000137208.2 | olfcv3 | olfactory receptor C family, v3 [Source:ZFIN;Acc:ZDB-GENE-050419-262] | ENSDARP00000114339 | ENSDARP00000114339.1 |
| OG0000008 | ENSDARG00000061903 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000061903.6 | ENSDART00000136603 | ENSDART00000136603.2 | BX908736.1 | olfactory receptor C family, k3 [Source:NCBI gene;Acc:569011] | ENSDARP00000122188 | ENSDARP00000122188.1 |
| OG0000008 | ENSDARG00000067828 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000067828.7 | ENSDART00000003907 | ENSDART00000003907.10 | olfce1 | olfactory receptor C family, e1 [Source:ZFIN;Acc:ZDB-GENE-120214-7] | ENSDARP00000011703 | ENSDARP00000011703.8 |
| OG0000008 | ENSDARG00000068576 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000068576.8 | ENSDART00000059500 | ENSDART00000059500.7 | olfcd3 | olfactory receptor C family, d3 [Source:ZFIN;Acc:ZDB-GENE-050712-4] | ENSDARP00000059499 | ENSDARP00000059499.6 |
| OG0000008 | ENSDARG00000068576 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000068576.8 | ENSDART00000151432 | ENSDART00000151432.2 | olfcd3 | olfactory receptor C family, d3 [Source:ZFIN;Acc:ZDB-GENE-050712-4] | ENSDARP00000125805 | ENSDARP00000125805.1 |
| OG0000008 | ENSDARG00000088029 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000088029.4 | ENSDART00000064153 | ENSDART00000064153.7 | FP016180.1 | olfactory receptor C family, n1 [Source:NCBI gene;Acc:793310] | ENSDARP00000064152 | ENSDARP00000064152.6 |
| OG0000008 | ENSDARG00000088029 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000088029.4 | ENSDART00000151519 | ENSDART00000151519.2 | FP016180.1 | olfactory receptor C family, n1 [Source:NCBI gene;Acc:793310] | ENSDARP00000125743 | ENSDARP00000125743.1 |
| OG0000008 | ENSDARG00000091990 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000091990.3 | ENSDART00000131587 | ENSDART00000131587.2 | olfck2 | olfactory receptor C family, k2 [Source:ZFIN;Acc:ZDB-GENE-050419-85] | ENSDARP00000114313 | ENSDARP00000114313.1 |
| OG0000008 | ENSDARG00000094735 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000094735.3 | ENSDART00000059497 | ENSDART00000059497.7 | olfcx1 | olfactory receptor C family, x1 [Source:ZFIN;Acc:ZDB-GENE-050419-84] | ENSDARP00000059496 | ENSDARP00000059496.7 |
| OG0000008 | ENSDARG00000094735 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000094735.3 | ENSDART00000147225 | ENSDART00000147225.2 | olfcx1 | olfactory receptor C family, x1 [Source:ZFIN;Acc:ZDB-GENE-050419-84] | ENSDARP00000120203 | ENSDARP00000120203.1 |
| OG0000008 | ENSDARG00000094735 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000094735.3 | ENSDART00000193409 | ENSDART00000193409.1 | olfcx1 | olfactory receptor C family, x1 [Source:ZFIN;Acc:ZDB-GENE-050419-84] | ENSDARP00000145651 | ENSDARP00000145651.1 |
| OG0000008 | ENSDARG00000094735 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000094735.3 | ENSDART00000179868 | ENSDART00000179868.1 | olfcx1 | olfactory receptor C family, x1 [Source:ZFIN;Acc:ZDB-GENE-050419-84] | ENSDARP00000150359 | ENSDARP00000150359.1 |
| OG0000008 | ENSDARG00000094735 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000094735.3 | ENSDART00000191151 | ENSDART00000191151.1 | olfcx1 | olfactory receptor C family, x1 [Source:ZFIN;Acc:ZDB-GENE-050419-84] | ENSDARP00000152908 | ENSDARP00000152908.1 |
| OG0000008 | ENSDARG00000096362 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000096362.2 | ENSDART00000151623 | ENSDART00000151623.2 | olfce2 | olfactory receptor C family, e2 [Source:ZFIN;Acc:ZDB-GENE-120214-20] | ENSDARP00000125852 | ENSDARP00000125852.1 |
| OG0000008 | ENSDARG00000098225 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000098225.2 | ENSDART00000168399 | ENSDART00000168399.2 | olfcg7 | olfactory receptor C family, g7 [Source:ZFIN;Acc:ZDB-GENE-081029-5] | ENSDARP00000130613 | ENSDARP00000130613.1 |
| OG0000008 | ENSDARG00000098492 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000098492.2 | ENSDART00000099094 | ENSDART00000099094.5 | olfcd2 | olfactory receptor C family, d2 [Source:ZFIN;Acc:ZDB-GENE-050712-5] | ENSDARP00000089868 | ENSDARP00000089868.4 |
| OG0000008 | ENSDARG00000098492 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000098492.2 | ENSDART00000162758 | ENSDART00000162758.2 | olfcd2 | olfactory receptor C family, d2 [Source:ZFIN;Acc:ZDB-GENE-050712-5] | ENSDARP00000141323 | ENSDARP00000141323.2 |
| OG0000008 | ENSDARG00000098546 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000098546.2 | ENSDART00000163462 | ENSDART00000163462.2 | olfcg6 | olfactory receptor C family, g6 [Source:ZFIN;Acc:ZDB-GENE-081029-9] | ENSDARP00000137968 | ENSDARP00000137968.1 |
| OG0000008 | ENSDARG00000098732 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000098732.2 | ENSDART00000162565 | ENSDART00000162565.2 | CU929403.1 | NA | ENSDARP00000133694 | ENSDARP00000133694.2 |
| OG0000008 | ENSDARG00000099773 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000099773.2 | ENSDART00000163528 | ENSDART00000163528.2 | olfcg4 | olfactory receptor C family, g4 [Source:ZFIN;Acc:ZDB-GENE-060503-66] | ENSDARP00000137408 | ENSDARP00000137408.1 |
| OG0000008 | ENSDARG00000100026 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000100026.2 | ENSDART00000158437 | ENSDART00000158437.2 | olfch1 | olfactory receptor C family, h1 [Source:ZFIN;Acc:ZDB-GENE-060503-819] | ENSDARP00000130748 | ENSDARP00000130748.1 |
| OG0000008 | ENSDARG00000100377 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000100377.2 | ENSDART00000166937 | ENSDART00000166937.2 | CABZ01012885.1 | extracellular calcium-sensing receptor-like [Source:NCBI gene;Acc:100007225] | ENSDARP00000138286 | ENSDARP00000138286.1 |
| OG0000008 | ENSDARG00000100451 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000100451.2 | ENSDART00000165908 | ENSDART00000165908.2 | olfcs2 | olfactory receptor C family, s2 [Source:ZFIN;Acc:ZDB-GENE-060503-238] | ENSDARP00000140968 | ENSDARP00000140968.1 |
| OG0000008 | ENSDARG00000100604 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000100604.2 | ENSDART00000162385 | ENSDART00000162385.2 | olfcw1 | olfactory receptor C family, w1 [Source:ZFIN;Acc:ZDB-GENE-050522-281] | ENSDARP00000132887 | ENSDARP00000132887.1 |
| OG0000008 | ENSDARG00000101083 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000101083.2 | ENSDART00000161553 | ENSDART00000161553.2 | olfcg2 | olfactory receptor C family, g2 [Source:ZFIN;Acc:ZDB-GENE-060503-253] | ENSDARP00000130806 | ENSDARP00000130806.1 |
| OG0000008 | ENSDARG00000101083 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000101083.2 | ENSDART00000170387 | ENSDART00000170387.2 | olfcg2 | olfactory receptor C family, g2 [Source:ZFIN;Acc:ZDB-GENE-060503-253] | ENSDARP00000132374 | ENSDARP00000132374.1 |
| OG0000008 | ENSDARG00000102459 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000102459.2 | ENSDART00000172671 | ENSDART00000172671.2 | olfcg5 | olfactory receptor C family, g5 [Source:ZFIN;Acc:ZDB-GENE-060503-913] | ENSDARP00000134125 | ENSDARP00000134125.1 |
| OG0000008 | ENSDARG00000103122 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000103122.2 | ENSDART00000163311 | ENSDART00000163311.2 | olfcg8 | olfactory receptor C family, g8 [Source:ZFIN;Acc:ZDB-GENE-081030-12] | ENSDARP00000138964 | ENSDARP00000138964.1 |
| OG0000008 | ENSDARG00000103122 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000103122.2 | ENSDART00000158288 | ENSDART00000158288.2 | olfcg8 | olfactory receptor C family, g8 [Source:ZFIN;Acc:ZDB-GENE-081030-12] | ENSDARP00000139387 | ENSDARP00000139387.1 |
| OG0000008 | ENSDARG00000104430 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000104430.2 | ENSDART00000160100 | ENSDART00000160100.2 | olfcj1 | olfactory receptor C family, j1 [Source:ZFIN;Acc:ZDB-GENE-060503-724] | ENSDARP00000132813 | ENSDARP00000132813.1 |
| OG0000008 | ENSDARG00000104552 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000104552.2 | ENSDART00000166038 | ENSDART00000166038.2 | olfcg1 | olfactory receptor C family, g1 [Source:ZFIN;Acc:ZDB-GENE-060503-630] | ENSDARP00000135728 | ENSDARP00000135728.1 |
| OG0000008 | ENSDARG00000104854 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000104854.2 | ENSDART00000160945 | ENSDART00000160945.2 | olfcg3 | olfactory receptor C family, g3 [Source:ZFIN;Acc:ZDB-GENE-060503-159] | ENSDARP00000130195 | ENSDARP00000130195.1 |
| OG0000008 | ENSDARG00000104854 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000104854.2 | ENSDART00000167901 | ENSDART00000167901.2 | olfcg3 | olfactory receptor C family, g3 [Source:ZFIN;Acc:ZDB-GENE-060503-159] | ENSDARP00000132226 | ENSDARP00000132226.1 |
| OG0000008 | ENSDARG00000104881 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000104881.2 | ENSDART00000164223 | ENSDART00000164223.2 | olfcg12 | olfactory receptor C family, g12 [Source:ZFIN;Acc:ZDB-GENE-050419-156] | ENSDARP00000130310 | ENSDARP00000130310.1 |
| OG0000008 | ENSDARG00000105189 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000105189.2 | ENSDART00000168362 | ENSDART00000168362.2 | olfcg9 | olfactory receptor C family, g9 [Source:ZFIN;Acc:ZDB-GENE-081029-6] | ENSDARP00000136106 | ENSDARP00000136106.1 |
| OG0000008 | ENSDARG00000109588 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000109588.1 | ENSDART00000189338 | ENSDART00000189338.1 | olfcw1 | olfactory receptor C family, w1 [Source:ZFIN;Acc:ZDB-GENE-050522-281] | ENSDARP00000155458 | ENSDARP00000155458.1 |
| OG0000008 | ENSDARG00000110552 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000110552.1 | ENSDART00000164686 | ENSDART00000164686.2 | olfcu1 | olfactory receptor C family, u1 [Source:ZFIN;Acc:ZDB-GENE-050419-175] | ENSDARP00000138114 | ENSDARP00000138114.2 |
| OG0000008 | ENSDARG00000110552 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000110552.1 | ENSDART00000193035 | ENSDART00000193035.1 | olfcu1 | olfactory receptor C family, u1 [Source:ZFIN;Acc:ZDB-GENE-050419-175] | ENSDARP00000150506 | ENSDARP00000150506.1 |
| OG0000008 | ENSDARG00000112564 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000112564.1 | ENSDART00000191907 | ENSDART00000191907.1 | CABZ01032906.1 | extracellular calcium-sensing receptor-like [Source:NCBI gene;Acc:100537475] | ENSDARP00000147097 | ENSDARP00000147097.1 |
| OG0000008 | ENSDARG00000114798 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000114798.1 | ENSDART00000182992 | ENSDART00000182992.1 | CABZ01032906.2 | extracellular calcium-sensing receptor-like [Source:NCBI gene;Acc:793043] | ENSDARP00000149792 | ENSDARP00000149792.1 |
| OG0000008 | ENSDARG00000116427 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000116427.1 | ENSDART00000161467 | ENSDART00000161467.2 | olfcg1 | olfactory receptor C family, g1 [Source:ZFIN;Acc:ZDB-GENE-060503-630] | ENSDARP00000141872 | ENSDARP00000141872.2 |
| OG0000009 | ENSDARG00000014624 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000014624.9 | ENSDART00000123448 | ENSDART00000123448.3 | si:dkeyp-94g1.1 | si:dkeyp-94g1.1 [Source:ZFIN;Acc:ZDB-GENE-030131-7910] | ENSDARP00000110758 | ENSDARP00000110758.2 |
| OG0000009 | ENSDARG00000025505 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000025505.8 | ENSDART00000146304 | ENSDART00000146304.3 | si:ch73-335d12.2 | si:ch73-335d12.2 [Source:ZFIN;Acc:ZDB-GENE-060503-423] | ENSDARP00000114230 | ENSDARP00000114230.2 |
| OG0000009 | ENSDARG00000025505 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000025505.8 | ENSDART00000113403 | ENSDART00000113403.2 | si:ch73-335d12.2 | si:ch73-335d12.2 [Source:ZFIN;Acc:ZDB-GENE-060503-423] | ENSDARP00000103572 | ENSDARP00000103572.2 |
| OG0000009 | ENSDARG00000025505 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000025505.8 | ENSDART00000060333 | ENSDART00000060333.8 | si:ch73-335d12.2 | si:ch73-335d12.2 [Source:ZFIN;Acc:ZDB-GENE-060503-423] | ENSDARP00000060332 | ENSDARP00000060332.5 |
| OG0000009 | ENSDARG00000034330 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000034330.10 | ENSDART00000137683 | ENSDART00000137683.3 | si:dkey-88n24.7 | si:dkey-88n24.7 [Source:ZFIN;Acc:ZDB-GENE-041014-91] | ENSDARP00000118757 | ENSDARP00000118757.2 |
| OG0000009 | ENSDARG00000034330 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000034330.10 | ENSDART00000143064 | ENSDART00000143064.3 | si:dkey-88n24.7 | si:dkey-88n24.7 [Source:ZFIN;Acc:ZDB-GENE-041014-91] | ENSDARP00000122754 | ENSDARP00000122754.1 |
| OG0000009 | ENSDARG00000034330 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000034330.10 | ENSDART00000049926 | ENSDART00000049926.7 | si:dkey-88n24.7 | si:dkey-88n24.7 [Source:ZFIN;Acc:ZDB-GENE-041014-91] | ENSDARP00000049925 | ENSDARP00000049925.6 |
| OG0000009 | ENSDARG00000041159 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000041159.7 | ENSDART00000173246 | ENSDART00000173246.2 | si:ch211-63p21.4 | si:ch211-63p21.4 [Source:ZFIN;Acc:ZDB-GENE-160113-20] | ENSDARP00000142577 | ENSDARP00000142577.1 |
| OG0000009 | ENSDARG00000041159 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000041159.7 | ENSDART00000172808 | ENSDART00000172808.2 | si:ch211-63p21.4 | si:ch211-63p21.4 [Source:ZFIN;Acc:ZDB-GENE-160113-20] | ENSDARP00000142160 | ENSDARP00000142160.1 |
| OG0000009 | ENSDARG00000041159 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000041159.7 | ENSDART00000187891 | ENSDART00000187891.1 | si:ch211-63p21.4 | si:ch211-63p21.4 [Source:ZFIN;Acc:ZDB-GENE-160113-20] | ENSDARP00000151032 | ENSDARP00000151032.1 |
| OG0000009 | ENSDARG00000041389 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000041389.7 | ENSDART00000132983 | ENSDART00000132983.4 | si:dkey-81n2.1 | si:dkey-81n2.1 [Source:ZFIN;Acc:ZDB-GENE-070705-492] | ENSDARP00000113083 | ENSDARP00000113083.2 |
| OG0000009 | ENSDARG00000041389 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000041389.7 | ENSDART00000137067 | ENSDART00000137067.2 | si:dkey-81n2.1 | si:dkey-81n2.1 [Source:ZFIN;Acc:ZDB-GENE-070705-492] | ENSDARP00000120436 | ENSDARP00000120436.1 |
| OG0000009 | ENSDARG00000042752 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000042752.8 | ENSDART00000137140 | ENSDART00000137140.3 | si:ch211-282j17.11 | si:ch211-282j17.11 [Source:ZFIN;Acc:ZDB-GENE-041210-284] | ENSDARP00000121819 | ENSDARP00000121819.1 |
| OG0000009 | ENSDARG00000042752 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000042752.8 | ENSDART00000136711 | ENSDART00000136711.2 | si:ch211-282j17.11 | si:ch211-282j17.11 [Source:ZFIN;Acc:ZDB-GENE-041210-284] | ENSDARP00000119235 | ENSDARP00000119235.1 |
| OG0000009 | ENSDARG00000043736 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000043736.8 | ENSDART00000138945 | ENSDART00000138945.4 | si:ch211-282j17.8 | si:ch211-282j17.8 [Source:ZFIN;Acc:ZDB-GENE-041210-290] | ENSDARP00000120994 | ENSDARP00000120994.2 |
| OG0000009 | ENSDARG00000043736 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000043736.8 | ENSDART00000062732 | ENSDART00000062732.7 | si:ch211-282j17.8 | si:ch211-282j17.8 [Source:ZFIN;Acc:ZDB-GENE-041210-290] | ENSDARP00000062731 | ENSDARP00000062731.7 |
| OG0000009 | ENSDARG00000043767 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000043767.8 | ENSDART00000142591 | ENSDART00000142591.3 | si:ch211-282j17.3 | si:ch211-282j17.3 [Source:ZFIN;Acc:ZDB-GENE-041210-287] | ENSDARP00000115849 | ENSDARP00000115849.1 |
| OG0000009 | ENSDARG00000043768 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000043768.7 | ENSDART00000064279 | ENSDART00000064279.6 | si:ch211-282j17.2 | si:ch211-282j17.2 [Source:ZFIN;Acc:ZDB-GENE-041210-286] | ENSDARP00000064278 | ENSDARP00000064278.3 |
| OG0000009 | ENSDARG00000043769 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000043769.7 | ENSDART00000064280 | ENSDART00000064280.5 | si:ch211-282j17.1 | si:ch211-282j17.1 [Source:ZFIN;Acc:ZDB-GENE-041210-285] | ENSDARP00000064279 | ENSDARP00000064279.4 |
| OG0000009 | ENSDARG00000053114 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000053114.6 | ENSDART00000146083 | ENSDART00000146083.2 | si:ch211-272h9.3 | si:ch211-272h9.3 [Source:ZFIN;Acc:ZDB-GENE-070705-165] | ENSDARP00000112542 | ENSDARP00000112542.1 |
| OG0000009 | ENSDARG00000055332 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000055332.7 | ENSDART00000137385 | ENSDART00000137385.3 | si:dkey-28d5.11 | si:dkey-28d5.11 [Source:ZFIN;Acc:ZDB-GENE-060503-448] | ENSDARP00000122929 | ENSDARP00000122929.1 |
| OG0000009 | ENSDARG00000055346 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000055346.7 | ENSDART00000144321 | ENSDART00000144321.3 | si:dkey-83f18.2 | si:dkey-83f18.2 [Source:ZFIN;Acc:ZDB-GENE-070705-501] | ENSDARP00000117142 | ENSDARP00000117142.1 |
| OG0000009 | ENSDARG00000055346 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000055346.7 | ENSDART00000142344 | ENSDART00000142344.4 | si:dkey-83f18.2 | si:dkey-83f18.2 [Source:ZFIN;Acc:ZDB-GENE-070705-501] | ENSDARP00000114123 | ENSDARP00000114123.2 |
| OG0000009 | ENSDARG00000070850 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000070850.7 | ENSDART00000134839 | ENSDART00000134839.3 | si:ch211-282j17.10 | si:ch211-282j17.10 [Source:ZFIN;Acc:ZDB-GENE-041210-283] | ENSDARP00000113071 | ENSDARP00000113071.1 |
| OG0000009 | ENSDARG00000070851 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000070851.7 | ENSDART00000143201 | ENSDART00000143201.3 | si:dkey-88n24.6 | si:dkey-88n24.6 [Source:ZFIN;Acc:ZDB-GENE-041014-88] | ENSDARP00000115107 | ENSDARP00000115107.2 |
| OG0000009 | ENSDARG00000070851 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000070851.7 | ENSDART00000064246 | ENSDART00000064246.6 | si:dkey-88n24.6 | si:dkey-88n24.6 [Source:ZFIN;Acc:ZDB-GENE-041014-88] | ENSDARP00000064245 | ENSDARP00000064245.5 |
| OG0000009 | ENSDARG00000070851 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000070851.7 | ENSDART00000191053 | ENSDART00000191053.1 | si:dkey-88n24.6 | si:dkey-88n24.6 [Source:ZFIN;Acc:ZDB-GENE-041014-88] | ENSDARP00000147074 | ENSDARP00000147074.1 |
| OG0000009 | ENSDARG00000075036 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000075036.6 | ENSDART00000147528 | ENSDART00000147528.4 | si:ch211-225k7.6 | si:ch211-225k7.6 [Source:ZFIN;Acc:ZDB-GENE-070705-121] | ENSDARP00000117473 | ENSDARP00000117473.1 |
| OG0000009 | ENSDARG00000075036 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000075036.6 | ENSDART00000111390 | ENSDART00000111390.3 | si:ch211-225k7.6 | si:ch211-225k7.6 [Source:ZFIN;Acc:ZDB-GENE-070705-121] | ENSDARP00000098219 | ENSDARP00000098219.2 |
| OG0000009 | ENSDARG00000075634 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000075634.5 | ENSDART00000139880 | ENSDART00000139880.2 | si:ch211-225k7.4 | si:ch211-225k7.4 [Source:ZFIN;Acc:ZDB-GENE-060503-28] | ENSDARP00000122896 | ENSDARP00000122896.1 |
| OG0000009 | ENSDARG00000077136 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000077136.5 | ENSDART00000143722 | ENSDART00000143722.3 | si:dkey-28d5.14 | si:dkey-28d5.14 [Source:ZFIN;Acc:ZDB-GENE-060503-730] | ENSDARP00000120335 | ENSDARP00000120335.2 |
| OG0000009 | ENSDARG00000077260 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000077260.5 | ENSDART00000138168 | ENSDART00000138168.3 | si:dkey-28d5.13 | si:dkey-28d5.13 [Source:ZFIN;Acc:ZDB-GENE-060503-636] | ENSDARP00000117377 | ENSDARP00000117377.1 |
| OG0000009 | ENSDARG00000077260 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000077260.5 | ENSDART00000114543 | ENSDART00000114543.3 | si:dkey-28d5.13 | si:dkey-28d5.13 [Source:ZFIN;Acc:ZDB-GENE-060503-636] | ENSDARP00000100250 | ENSDARP00000100250.2 |
| OG0000009 | ENSDARG00000077260 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000077260.5 | ENSDART00000172384 | ENSDART00000172384.2 | si:dkey-28d5.13 | si:dkey-28d5.13 [Source:ZFIN;Acc:ZDB-GENE-060503-636] | ENSDARP00000138431 | ENSDARP00000138431.2 |
| OG0000009 | ENSDARG00000077395 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000077395.6 | ENSDART00000172889 | ENSDART00000172889.2 | si:dkey-81n2.2 | si:dkey-81n2.2 [Source:ZFIN;Acc:ZDB-GENE-070705-493] | ENSDARP00000142080 | ENSDARP00000142080.1 |
| OG0000009 | ENSDARG00000077395 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000077395.6 | ENSDART00000145389 | ENSDART00000145389.2 | si:dkey-81n2.2 | si:dkey-81n2.2 [Source:ZFIN;Acc:ZDB-GENE-070705-493] | ENSDARP00000119034 | ENSDARP00000119034.1 |
| OG0000009 | ENSDARG00000077899 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000077899.5 | ENSDART00000038628 | ENSDART00000038628.7 | si:dkey-28d5.11 | si:dkey-28d5.11 [Source:ZFIN;Acc:ZDB-GENE-060503-448] | ENSDARP00000035344 | ENSDARP00000035344.7 |
| OG0000009 | ENSDARG00000077899 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000077899.5 | ENSDART00000135154 | ENSDART00000135154.3 | si:dkey-28d5.11 | si:dkey-28d5.11 [Source:ZFIN;Acc:ZDB-GENE-060503-448] | ENSDARP00000116652 | ENSDARP00000116652.1 |
| OG0000009 | ENSDARG00000078012 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000078012.6 | ENSDART00000108797 | ENSDART00000108797.4 | zgc:162060 | zgc:162060 [Source:ZFIN;Acc:ZDB-GENE-070424-18] | ENSDARP00000102935 | ENSDARP00000102935.2 |
| OG0000009 | ENSDARG00000078821 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000078821.5 | ENSDART00000135106 | ENSDART00000135106.2 | si:ch211-225k7.5 | si:ch211-225k7.5 [Source:ZFIN;Acc:ZDB-GENE-060503-123] | ENSDARP00000118009 | ENSDARP00000118009.1 |
| OG0000009 | ENSDARG00000086282 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000086282.5 | ENSDART00000147014 | ENSDART00000147014.3 | si:ch211-282j17.5 | si:ch211-282j17.5 [Source:ZFIN;Acc:ZDB-GENE-041210-288] | ENSDARP00000122369 | ENSDARP00000122369.1 |
| OG0000009 | ENSDARG00000086358 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000086358.5 | ENSDART00000146915 | ENSDART00000146915.3 | si:dkey-83f18.9 | si:dkey-83f18.9 [Source:ZFIN;Acc:ZDB-GENE-070705-508] | ENSDARP00000113421 | ENSDARP00000113421.2 |
| OG0000009 | ENSDARG00000086358 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000086358.5 | ENSDART00000139326 | ENSDART00000139326.4 | si:dkey-83f18.9 | si:dkey-83f18.9 [Source:ZFIN;Acc:ZDB-GENE-070705-508] | ENSDARP00000121540 | ENSDARP00000121540.1 |
| OG0000009 | ENSDARG00000086460 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000086460.5 | ENSDART00000140860 | ENSDART00000140860.3 | si:dkey-83f18.10 | si:dkey-83f18.10 [Source:ZFIN;Acc:ZDB-GENE-070705-495] | ENSDARP00000122588 | ENSDARP00000122588.1 |
| OG0000009 | ENSDARG00000086460 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000086460.5 | ENSDART00000143778 | ENSDART00000143778.3 | si:dkey-83f18.10 | si:dkey-83f18.10 [Source:ZFIN;Acc:ZDB-GENE-070705-495] | ENSDARP00000120061 | ENSDARP00000120061.1 |
| OG0000009 | ENSDARG00000087424 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000087424.5 | ENSDART00000153614 | ENSDART00000153614.4 | si:dkey-187j14.6 | si:dkey-187j14.6 [Source:ZFIN;Acc:ZDB-GENE-131121-572] | ENSDARP00000142319 | ENSDARP00000142319.1 |
| OG0000009 | ENSDARG00000087424 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000087424.5 | ENSDART00000156781 | ENSDART00000156781.2 | si:dkey-187j14.6 | si:dkey-187j14.6 [Source:ZFIN;Acc:ZDB-GENE-131121-572] | NA | NA |
| OG0000009 | ENSDARG00000087424 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000087424.5 | ENSDART00000182211 | ENSDART00000182211.1 | si:dkey-187j14.6 | si:dkey-187j14.6 [Source:ZFIN;Acc:ZDB-GENE-131121-572] | ENSDARP00000156463 | ENSDARP00000156463.1 |
| OG0000009 | ENSDARG00000088252 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000088252.5 | ENSDART00000137830 | ENSDART00000137830.4 | si:dkey-83f18.7 | si:dkey-83f18.7 [Source:ZFIN;Acc:ZDB-GENE-070705-506] | ENSDARP00000120793 | ENSDARP00000120793.1 |
| OG0000009 | ENSDARG00000088682 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000088682.5 | ENSDART00000138164 | ENSDART00000138164.3 | si:dkey-192d15.3 | si:dkey-192d15.3 [Source:ZFIN;Acc:ZDB-GENE-040724-245] | ENSDARP00000114212 | ENSDARP00000114212.2 |
| OG0000009 | ENSDARG00000088682 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000088682.5 | ENSDART00000064277 | ENSDART00000064277.5 | si:dkey-192d15.3 | si:dkey-192d15.3 [Source:ZFIN;Acc:ZDB-GENE-040724-245] | ENSDARP00000064276 | ENSDARP00000064276.4 |
| OG0000009 | ENSDARG00000089067 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000089067.5 | ENSDART00000134368 | ENSDART00000134368.4 | si:dkey-83f18.5 | si:dkey-83f18.5 [Source:ZFIN;Acc:ZDB-GENE-070705-504] | ENSDARP00000117389 | ENSDARP00000117389.1 |
| OG0000009 | ENSDARG00000089067 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000089067.5 | ENSDART00000143622 | ENSDART00000143622.3 | si:dkey-83f18.5 | si:dkey-83f18.5 [Source:ZFIN;Acc:ZDB-GENE-070705-504] | ENSDARP00000117087 | ENSDARP00000117087.2 |
| OG0000009 | ENSDARG00000089958 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000089958.4 | ENSDART00000142138 | ENSDART00000142138.3 | si:dkey-88n24.10 | si:dkey-88n24.10 [Source:ZFIN;Acc:ZDB-GENE-070424-265] | ENSDARP00000122068 | ENSDARP00000122068.2 |
| OG0000009 | ENSDARG00000089958 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000089958.4 | ENSDART00000060330 | ENSDART00000060330.6 | si:dkey-88n24.10 | si:dkey-88n24.10 [Source:ZFIN;Acc:ZDB-GENE-070424-265] | ENSDARP00000060329 | ENSDARP00000060329.5 |
| OG0000009 | ENSDARG00000089958 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000089958.4 | ENSDART00000064229 | ENSDART00000064229.7 | si:dkey-88n24.10 | si:dkey-88n24.10 [Source:ZFIN;Acc:ZDB-GENE-070424-265] | ENSDARP00000064228 | ENSDARP00000064228.7 |
| OG0000009 | ENSDARG00000091083 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000091083.5 | ENSDART00000122825 | ENSDART00000122825.3 | si:ch211-195j11.27 | si:ch211-195j11.27 [Source:ZFIN;Acc:ZDB-GENE-110411-161] | ENSDARP00000108388 | ENSDARP00000108388.2 |
| OG0000009 | ENSDARG00000091095 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000091095.7 | ENSDART00000136227 | ENSDART00000136227.3 | si:dkey-88n24.8 | si:dkey-88n24.8 [Source:ZFIN;Acc:ZDB-GENE-041014-92] | ENSDARP00000118662 | ENSDARP00000118662.2 |
| OG0000009 | ENSDARG00000091095 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000091095.7 | ENSDART00000104350 | ENSDART00000104350.6 | si:dkey-88n24.8 | si:dkey-88n24.8 [Source:ZFIN;Acc:ZDB-GENE-041014-92] | ENSDARP00000095125 | ENSDARP00000095125.4 |
| OG0000009 | ENSDARG00000091495 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000091495.5 | ENSDART00000137468 | ENSDART00000137468.3 | si:dkey-83f18.11 | si:dkey-83f18.11 [Source:ZFIN;Acc:ZDB-GENE-070705-496] | ENSDARP00000121697 | ENSDARP00000121697.1 |
| OG0000009 | ENSDARG00000092384 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000092384.5 | ENSDART00000139960 | ENSDART00000139960.4 | si:dkey-28d5.3 | si:dkey-28d5.3 [Source:ZFIN;Acc:ZDB-GENE-060503-919] | ENSDARP00000119976 | ENSDARP00000119976.2 |
| OG0000009 | ENSDARG00000093312 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000093312.5 | ENSDART00000136195 | ENSDART00000136195.4 | si:dkey-83f18.4 | si:dkey-83f18.4 [Source:ZFIN;Acc:ZDB-GENE-070705-503] | ENSDARP00000113706 | ENSDARP00000113706.2 |
| OG0000009 | ENSDARG00000093312 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000093312.5 | ENSDART00000143777 | ENSDART00000143777.4 | si:dkey-83f18.4 | si:dkey-83f18.4 [Source:ZFIN;Acc:ZDB-GENE-070705-503] | ENSDARP00000117404 | ENSDARP00000117404.2 |
| OG0000009 | ENSDARG00000093312 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000093312.5 | ENSDART00000187693 | ENSDART00000187693.1 | si:dkey-83f18.4 | si:dkey-83f18.4 [Source:ZFIN;Acc:ZDB-GENE-070705-503] | ENSDARP00000150371 | ENSDARP00000150371.1 |
| OG0000009 | ENSDARG00000093595 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000093595.4 | ENSDART00000143864 | ENSDART00000143864.3 | si:dkey-88n24.10 | si:dkey-88n24.10 [Source:ZFIN;Acc:ZDB-GENE-070424-265] | ENSDARP00000112618 | ENSDARP00000112618.1 |
| OG0000009 | ENSDARG00000093673 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000093673.4 | ENSDART00000142704 | ENSDART00000142704.4 | si:dkey-28d5.4 | si:dkey-28d5.4 [Source:ZFIN;Acc:ZDB-GENE-060503-72] | ENSDARP00000117070 | ENSDARP00000117070.1 |
| OG0000009 | ENSDARG00000093876 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000093876.4 | ENSDART00000147669 | ENSDART00000147669.3 | si:dkey-28d5.10 | si:dkey-28d5.10 [Source:ZFIN;Acc:ZDB-GENE-060503-353] | ENSDARP00000121813 | ENSDARP00000121813.1 |
| OG0000009 | ENSDARG00000094225 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000094225.4 | ENSDART00000139120 | ENSDART00000139120.3 | si:dkey-28d5.8 | si:dkey-28d5.8 [Source:ZFIN;Acc:ZDB-GENE-060503-354] | ENSDARP00000116497 | ENSDARP00000116497.1 |
| OG0000009 | ENSDARG00000094716 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000094716.4 | ENSDART00000137387 | ENSDART00000137387.4 | si:dkey-83f18.6 | si:dkey-83f18.6 [Source:ZFIN;Acc:ZDB-GENE-070705-505] | ENSDARP00000121843 | ENSDARP00000121843.1 |
| OG0000009 | ENSDARG00000095250 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000095250.3 | ENSDART00000132862 | ENSDART00000132862.3 | si:ch211-225k7.3 | si:ch211-225k7.3 [Source:ZFIN;Acc:ZDB-GENE-060503-876] | ENSDARP00000114035 | ENSDARP00000114035.1 |
| OG0000009 | ENSDARG00000095250 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000095250.3 | ENSDART00000144873 | ENSDART00000144873.3 | si:ch211-225k7.3 | si:ch211-225k7.3 [Source:ZFIN;Acc:ZDB-GENE-060503-876] | ENSDARP00000119152 | ENSDARP00000119152.3 |
| OG0000009 | ENSDARG00000095250 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000095250.3 | ENSDART00000108557 | ENSDART00000108557.3 | si:ch211-225k7.3 | si:ch211-225k7.3 [Source:ZFIN;Acc:ZDB-GENE-060503-876] | ENSDARP00000102676 | ENSDARP00000102676.3 |
| OG0000009 | ENSDARG00000095326 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000095326.4 | ENSDART00000145641 | ENSDART00000145641.3 | si:dkey-88n24.3 | si:dkey-88n24.3 [Source:ZFIN;Acc:ZDB-GENE-041014-89] | ENSDARP00000120677 | ENSDARP00000120677.2 |
| OG0000009 | ENSDARG00000095481 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000095481.4 | ENSDART00000081279 | ENSDART00000081279.5 | si:ch211-282j17.10 | si:ch211-282j17.10 [Source:ZFIN;Acc:ZDB-GENE-041210-283] | ENSDARP00000075722 | ENSDARP00000075722.4 |
| OG0000009 | ENSDARG00000095481 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000095481.4 | ENSDART00000137369 | ENSDART00000137369.3 | si:ch211-282j17.10 | si:ch211-282j17.10 [Source:ZFIN;Acc:ZDB-GENE-041210-283] | ENSDARP00000122080 | ENSDARP00000122080.2 |
| OG0000009 | ENSDARG00000095481 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000095481.4 | ENSDART00000131645 | ENSDART00000131645.3 | si:ch211-282j17.10 | si:ch211-282j17.10 [Source:ZFIN;Acc:ZDB-GENE-041210-283] | ENSDARP00000120330 | ENSDARP00000120330.1 |
| OG0000009 | ENSDARG00000095757 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000095757.3 | ENSDART00000134882 | ENSDART00000134882.3 | si:dkey-28d5.1 | si:dkey-28d5.1 [Source:ZFIN;Acc:ZDB-GENE-060503-258] | ENSDARP00000122230 | ENSDARP00000122230.2 |
| OG0000009 | ENSDARG00000102537 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000102537.3 | ENSDART00000171574 | ENSDART00000171574.3 | si:cabz01007816.2 | si:cabz01007816.2 [Source:ZFIN;Acc:ZDB-GENE-160728-31] | ENSDARP00000140746 | ENSDARP00000140746.1 |
| OG0000009 | ENSDARG00000102866 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000102866.2 | ENSDART00000160132 | ENSDART00000160132.2 | CR391991.1 | NA | ENSDARP00000133921 | ENSDARP00000133921.1 |
| OG0000009 | ENSDARG00000103510 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000103510.2 | ENSDART00000129826 | ENSDART00000129826.3 | CR391991.2 | NA | ENSDARP00000139936 | ENSDARP00000139936.1 |
| OG0000009 | ENSDARG00000104302 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000104302.2 | ENSDART00000160634 | ENSDART00000160634.2 | CR391991.3 | NA | ENSDARP00000137613 | ENSDARP00000137613.2 |
| OG0000009 | ENSDARG00000104524 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000104524.2 | ENSDART00000168202 | ENSDART00000168202.2 | CR391991.4 | macrophage mannose receptor 1-like [Source:NCBI gene;Acc:101885237] | ENSDARP00000132616 | ENSDARP00000132616.1 |
| OG0000009 | ENSDARG00000105247 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000105247.2 | ENSDART00000158839 | ENSDART00000158839.2 | CR391991.5 | NA | ENSDARP00000141641 | ENSDARP00000141641.1 |
| OG0000009 | ENSDARG00000105334 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000105334.2 | ENSDART00000139823 | ENSDART00000139823.4 | si:dkey-28d5.14 | si:dkey-28d5.14 [Source:ZFIN;Acc:ZDB-GENE-060503-730] | ENSDARP00000113399 | ENSDARP00000113399.2 |
| OG0000009 | ENSDARG00000105334 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000105334.2 | ENSDART00000172752 | ENSDART00000172752.2 | si:dkey-28d5.14 | si:dkey-28d5.14 [Source:ZFIN;Acc:ZDB-GENE-060503-730] | ENSDARP00000142208 | ENSDARP00000142208.1 |
| OG0000009 | ENSDARG00000105334 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000105334.2 | ENSDART00000105073 | ENSDART00000105073.3 | si:dkey-28d5.14 | si:dkey-28d5.14 [Source:ZFIN;Acc:ZDB-GENE-060503-730] | ENSDARP00000095844 | ENSDARP00000095844.3 |
| OG0000009 | ENSDARG00000105413 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000105413.2 | ENSDART00000137489 | ENSDART00000137489.4 | si:dkey-83f18.8 | si:dkey-83f18.8 [Source:ZFIN;Acc:ZDB-GENE-070705-507] | ENSDARP00000118658 | ENSDARP00000118658.2 |
| OG0000009 | ENSDARG00000105495 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000105495.2 | ENSDART00000173447 | ENSDART00000173447.2 | si:dkey-31g16.2 | si:dkey-31g16.2 [Source:ZFIN;Acc:ZDB-GENE-160113-141] | ENSDARP00000142463 | ENSDARP00000142463.2 |
| OG0000009 | ENSDARG00000105746 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000105746.2 | ENSDART00000174032 | ENSDART00000174032.2 | LO018124.1 | si:cabz01083838.1 [Source:NCBI gene;Acc:101883056] | ENSDARP00000143112 | ENSDARP00000143112.2 |
| OG0000009 | ENSDARG00000105746 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000105746.2 | ENSDART00000189417 | ENSDART00000189417.1 | LO018124.1 | si:cabz01083838.1 [Source:NCBI gene;Acc:101883056] | ENSDARP00000152554 | ENSDARP00000152554.1 |
| OG0000009 | ENSDARG00000111755 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000111755.1 | ENSDART00000181937 | ENSDART00000181937.1 | CT030017.2 | NA | ENSDARP00000145673 | ENSDARP00000145673.1 |
| OG0000009 | ENSDARG00000111848 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000111848.1 | ENSDART00000139271 | ENSDART00000139271.4 | si:ch211-225k7.2 | si:ch211-225k7.2 [Source:ZFIN;Acc:ZDB-GENE-060503-782] | ENSDARP00000119331 | ENSDARP00000119331.2 |
| OG0000009 | ENSDARG00000111848 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000111848.1 | ENSDART00000112697 | ENSDART00000112697.4 | si:ch211-225k7.2 | si:ch211-225k7.2 [Source:ZFIN;Acc:ZDB-GENE-060503-782] | ENSDARP00000100820 | ENSDARP00000100820.3 |
| OG0000009 | ENSDARG00000113384 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000113384.1 | ENSDART00000141073 | ENSDART00000141073.3 | si:dkey-83f18.15 | si:dkey-83f18.15 [Source:ZFIN;Acc:ZDB-GENE-070705-500] | ENSDARP00000116115 | ENSDARP00000116115.2 |
| OG0000009 | ENSDARG00000113384 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000113384.1 | ENSDART00000192614 | ENSDART00000192614.1 | si:dkey-83f18.15 | si:dkey-83f18.15 [Source:ZFIN;Acc:ZDB-GENE-070705-500] | ENSDARP00000151490 | ENSDARP00000151490.1 |
| OG0000009 | ENSDARG00000114345 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000114345.1 | ENSDART00000138277 | ENSDART00000138277.3 | si:dkey-28d5.5 | si:dkey-28d5.5 [Source:ZFIN;Acc:ZDB-GENE-060503-165] | ENSDARP00000116283 | ENSDARP00000116283.2 |
| OG0000009 | ENSDARG00000114345 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000114345.1 | ENSDART00000142539 | ENSDART00000142539.4 | si:dkey-28d5.5 | si:dkey-28d5.5 [Source:ZFIN;Acc:ZDB-GENE-060503-165] | ENSDARP00000112557 | ENSDARP00000112557.2 |
| OG0000009 | ENSDARG00000114345 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000114345.1 | ENSDART00000190454 | ENSDART00000190454.1 | si:dkey-28d5.5 | si:dkey-28d5.5 [Source:ZFIN;Acc:ZDB-GENE-060503-165] | ENSDARP00000152593 | ENSDARP00000152593.1 |
| OG0000009 | ENSDARG00000115633 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000115633.1 | ENSDART00000148099 | ENSDART00000148099.4 | si:dkey-83f18.3 | si:dkey-83f18.3 [Source:ZFIN;Acc:ZDB-GENE-070705-502] | ENSDARP00000122844 | ENSDARP00000122844.1 |
| OG0000013 | ENSDARG00000008182 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000008182.9 | ENSDART00000149470 | ENSDART00000149470.2 | si:ch73-111e15.1 | si:ch73-111e15.1 [Source:ZFIN;Acc:ZDB-GENE-110411-28] | ENSDARP00000124091 | ENSDARP00000124091.1 |
| OG0000013 | ENSDARG00000025150 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000025150.8 | ENSDART00000031356 | ENSDART00000031356.7 | si:dkey-181c13.1 | si:dkey-181c13.1 [Source:ZFIN;Acc:ZDB-GENE-110411-174] | ENSDARP00000037460 | ENSDARP00000037460.5 |
| OG0000013 | ENSDARG00000025547 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000025547.9 | ENSDART00000138446 | ENSDART00000138446.2 | si:ch73-343l4.6 | si:ch73-343l4.6 [Source:ZFIN;Acc:ZDB-GENE-090313-158] | ENSDARP00000120180 | ENSDARP00000120180.1 |
| OG0000013 | ENSDARG00000029461 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000029461.7 | ENSDART00000040733 | ENSDART00000040733.5 | cd209 | CD209 molecule [Source:ZFIN;Acc:ZDB-GENE-061207-22] | ENSDARP00000040732 | ENSDARP00000040732.3 |
| OG0000013 | ENSDARG00000043894 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000043894.6 | ENSDART00000064459 | ENSDART00000064459.6 | si:ch211-214k5.3 | si:ch211-214k5.3 [Source:ZFIN;Acc:ZDB-GENE-041210-206] | ENSDARP00000064458 | ENSDARP00000064458.5 |
| OG0000013 | ENSDARG00000052656 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000052656.6 | ENSDART00000141147 | ENSDART00000141147.2 | si:ch211-193e13.5 | si:ch211-193e13.5 [Source:ZFIN;Acc:ZDB-GENE-081104-158] | ENSDARP00000117607 | ENSDARP00000117607.1 |
| OG0000013 | ENSDARG00000057090 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000057090.6 | ENSDART00000079686 | ENSDART00000079686.6 | zmp:0000001103 | zmp:0000001103 [Source:ZFIN;Acc:ZDB-GENE-140106-63] | ENSDARP00000074138 | ENSDARP00000074138.5 |
| OG0000013 | ENSDARG00000069323 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000069323.3 | ENSDART00000100783 | ENSDART00000100783.3 | si:ch73-122g19.1 | si:ch73-122g19.1 [Source:ZFIN;Acc:ZDB-GENE-110411-239] | ENSDARP00000091556 | ENSDARP00000091556.2 |
| OG0000013 | ENSDARG00000076778 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000076778.4 | ENSDART00000109353 | ENSDART00000109353.4 | si:ch73-343l4.5 | si:ch73-343l4.5 [Source:ZFIN;Acc:ZDB-GENE-090313-157] | ENSDARP00000102420 | ENSDARP00000102420.3 |
| OG0000013 | ENSDARG00000077975 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000077975.5 | ENSDART00000147516 | ENSDART00000147516.2 | si:ch73-343l4.8 | si:ch73-343l4.8 [Source:ZFIN;Acc:ZDB-GENE-090313-159] | ENSDARP00000121395 | ENSDARP00000121395.1 |
| OG0000013 | ENSDARG00000079425 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000079425.5 | ENSDART00000150141 | ENSDART00000150141.2 | si:dkey-12f6.5 | si:dkey-12f6.5 [Source:ZFIN;Acc:ZDB-GENE-110411-173] | ENSDARP00000123936 | ENSDARP00000123936.1 |
| OG0000013 | ENSDARG00000079903 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000079903.5 | ENSDART00000142371 | ENSDART00000142371.2 | si:ch73-343l4.2 | si:ch73-343l4.2 [Source:ZFIN;Acc:ZDB-GENE-090313-154] | ENSDARP00000119448 | ENSDARP00000119448.1 |
| OG0000013 | ENSDARG00000087245 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000087245.3 | ENSDART00000130515 | ENSDART00000130515.3 | CR847844.1 | CD209 antigen-like protein D [Source:NCBI gene;Acc:101884526] | ENSDARP00000106122 | ENSDARP00000106122.2 |
| OG0000013 | ENSDARG00000088219 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000088219.3 | ENSDART00000127255 | ENSDART00000127255.3 | zmp:0000000924 | zmp:0000000924 [Source:ZFIN;Acc:ZDB-GENE-130530-927] | ENSDARP00000111414 | ENSDARP00000111414.2 |
| OG0000013 | ENSDARG00000088727 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000088727.3 | ENSDART00000125317 | ENSDART00000125317.3 | zmp:0000000937 | zmp:0000000937 [Source:ZFIN;Acc:ZDB-GENE-130530-940] | ENSDARP00000111702 | ENSDARP00000111702.2 |
| OG0000013 | ENSDARG00000092502 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000092502.2 | ENSDART00000144358 | ENSDART00000144358.2 | si:ch73-343l4.3 | si:ch73-343l4.3 [Source:ZFIN;Acc:ZDB-GENE-090313-155] | ENSDARP00000113425 | ENSDARP00000113425.1 |
| OG0000013 | ENSDARG00000094357 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000094357.2 | ENSDART00000143931 | ENSDART00000143931.2 | si:ch73-343l4.1 | si:ch73-343l4.1 [Source:ZFIN;Acc:ZDB-GENE-090313-153] | ENSDARP00000114400 | ENSDARP00000114400.1 |
| OG0000013 | ENSDARG00000095127 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000095127.3 | ENSDART00000137078 | ENSDART00000137078.2 | si:ch73-343l4.6 | si:ch73-343l4.6 [Source:ZFIN;Acc:ZDB-GENE-090313-158] | ENSDARP00000116210 | ENSDARP00000116210.1 |
| OG0000013 | ENSDARG00000096624 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000096624.2 | ENSDART00000152274 | ENSDART00000152274.2 | si:dkey-187i8.2 | si:dkey-187i8.2 [Source:ZFIN;Acc:ZDB-GENE-121214-181] | ENSDARP00000127069 | ENSDARP00000127069.1 |
| OG0000013 | ENSDARG00000102034 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000102034.2 | ENSDART00000037303 | ENSDART00000037303.6 | si:ch211-214k5.3 | si:ch211-214k5.3 [Source:ZFIN;Acc:ZDB-GENE-041210-206] | ENSDARP00000029346 | ENSDARP00000029346.5 |
| OG0000013 | ENSDARG00000102680 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000102680.2 | ENSDART00000159654 | ENSDART00000159654.2 | CR847844.2 | NA | ENSDARP00000137441 | ENSDARP00000137441.1 |
| OG0000013 | ENSDARG00000112826 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000112826.1 | ENSDART00000193055 | ENSDART00000193055.1 | CABZ01058107.1 | C-type lectin domain family 4 member M-like [Source:NCBI gene;Acc:110440085] | ENSDARP00000146419 | ENSDARP00000146419.1 |
| OG0000014 | ENSDARG00000001993 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000001993.9 | ENSDART00000156295 | ENSDART00000156295.3 | myhb | myosin, heavy chain b [Source:ZFIN;Acc:ZDB-GENE-081124-1] | ENSDARP00000128891 | ENSDARP00000128891.1 |
| OG0000014 | ENSDARG00000001993 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000001993.9 | ENSDART00000026257 | ENSDART00000026257.8 | myhb | myosin, heavy chain b [Source:ZFIN;Acc:ZDB-GENE-081124-1] | ENSDARP00000011269 | ENSDARP00000011269.7 |
| OG0000014 | ENSDARG00000012944 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000012944.12 | ENSDART00000051361 | ENSDART00000051361.6 | myhz2 | myosin, heavy polypeptide 2, fast muscle specific [Source:ZFIN;Acc:ZDB-GENE-020604-1] | ENSDARP00000051360 | ENSDARP00000051360.5 |
| OG0000014 | ENSDARG00000012944 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000012944.12 | ENSDART00000126873 | ENSDART00000126873.4 | myhz2 | myosin, heavy polypeptide 2, fast muscle specific [Source:ZFIN;Acc:ZDB-GENE-020604-1] | ENSDARP00000108224 | ENSDARP00000108224.2 |
| OG0000014 | ENSDARG00000035322 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000035322.7 | ENSDART00000137438 | ENSDART00000137438.4 | myh7bb | myosin, heavy chain 7B, cardiac muscle, beta b [Source:ZFIN;Acc:ZDB-GENE-090311-5] | ENSDARP00000114580 | ENSDARP00000114580.2 |
| OG0000014 | ENSDARG00000035322 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000035322.7 | ENSDART00000025057 | ENSDART00000025057.8 | myh7bb | myosin, heavy chain 7B, cardiac muscle, beta b [Source:ZFIN;Acc:ZDB-GENE-090311-5] | ENSDARP00000025782 | ENSDARP00000025782.8 |
| OG0000014 | ENSDARG00000035438 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000035438.9 | ENSDART00000077471 | ENSDART00000077471.6 | myhc4 | myosin heavy chain 4 [Source:ZFIN;Acc:ZDB-GENE-030131-6206] | ENSDARP00000071938 | ENSDARP00000071938.5 |
| OG0000014 | ENSDARG00000035438 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000035438.9 | ENSDART00000125917 | ENSDART00000125917.4 | myhc4 | myosin heavy chain 4 [Source:ZFIN;Acc:ZDB-GENE-030131-6206] | ENSDARP00000106440 | ENSDARP00000106440.2 |
| OG0000014 | ENSDARG00000035438 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000035438.9 | ENSDART00000051362 | ENSDART00000051362.7 | myhc4 | myosin heavy chain 4 [Source:ZFIN;Acc:ZDB-GENE-030131-6206] | ENSDARP00000051361 | ENSDARP00000051361.6 |
| OG0000014 | ENSDARG00000067990 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000067990.7 | ENSDART00000123003 | ENSDART00000123003.3 | myhz1.1 | myosin, heavy polypeptide 1.1, skeletal muscle [Source:ZFIN;Acc:ZDB-GENE-000322-5] | ENSDARP00000105831 | ENSDARP00000105831.2 |
| OG0000014 | ENSDARG00000067990 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000067990.7 | ENSDART00000193758 | ENSDART00000193758.1 | myhz1.1 | myosin, heavy polypeptide 1.1, skeletal muscle [Source:ZFIN;Acc:ZDB-GENE-000322-5] | ENSDARP00000152470 | ENSDARP00000152470.1 |
| OG0000014 | ENSDARG00000067995 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000067995.7 | ENSDART00000183522 | ENSDART00000183522.1 | myhz1.2 | myosin, heavy polypeptide 1.2, skeletal muscle [Source:ZFIN;Acc:ZDB-GENE-070705-73] | ENSDARP00000146874 | ENSDARP00000146874.1 |
| OG0000014 | ENSDARG00000067995 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000067995.7 | ENSDART00000131983 | ENSDART00000131983.2 | myhz1.2 | myosin, heavy polypeptide 1.2, skeletal muscle [Source:ZFIN;Acc:ZDB-GENE-070705-73] | ENSDARP00000115054 | ENSDARP00000115054.1 |
| OG0000014 | ENSDARG00000067997 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000067997.6 | ENSDART00000122889 | ENSDART00000122889.3 | myhz1.3 | myosin, heavy polypeptide 1.3, skeletal muscle [Source:ZFIN;Acc:ZDB-GENE-070705-74] | ENSDARP00000111326 | ENSDARP00000111326.2 |
| OG0000014 | ENSDARG00000067997 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000067997.6 | ENSDART00000181242 | ENSDART00000181242.1 | myhz1.3 | myosin, heavy polypeptide 1.3, skeletal muscle [Source:ZFIN;Acc:ZDB-GENE-070705-74] | ENSDARP00000147700 | ENSDARP00000147700.1 |
| OG0000014 | ENSDARG00000076075 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000076075.5 | ENSDART00000097316 | ENSDART00000097316.5 | myh7ba | myosin, heavy chain 7B, cardiac muscle, beta a [Source:ZFIN;Acc:ZDB-GENE-100914-2] | ENSDARP00000088086 | ENSDARP00000088086.4 |
| OG0000014 | ENSDARG00000076075 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000076075.5 | ENSDART00000152551 | ENSDART00000152551.2 | myh7ba | myosin, heavy chain 7B, cardiac muscle, beta a [Source:ZFIN;Acc:ZDB-GENE-100914-2] | NA | NA |
| OG0000014 | ENSDARG00000076075 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000076075.5 | ENSDART00000152186 | ENSDART00000152186.3 | myh7ba | myosin, heavy chain 7B, cardiac muscle, beta a [Source:ZFIN;Acc:ZDB-GENE-100914-2] | ENSDARP00000126705 | ENSDARP00000126705.3 |
| OG0000014 | ENSDARG00000079564 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000079564.4 | ENSDART00000099532 | ENSDART00000099532.5 | myh7 | myosin heavy chain 7 [Source:ZFIN;Acc:ZDB-GENE-991123-5] | ENSDARP00000090306 | ENSDARP00000090306.4 |
| OG0000014 | ENSDARG00000079564 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000079564.4 | ENSDART00000192445 | ENSDART00000192445.1 | myh7 | myosin heavy chain 7 [Source:ZFIN;Acc:ZDB-GENE-991123-5] | ENSDARP00000146011 | ENSDARP00000146011.1 |
| OG0000014 | ENSDARG00000079782 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000079782.7 | ENSDART00000138076 | ENSDART00000138076.2 | myh7l | myosin heavy chain 7-like [Source:ZFIN;Acc:ZDB-GENE-061027-393] | NA | NA |
| OG0000014 | ENSDARG00000079782 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000079782.7 | ENSDART00000124461 | ENSDART00000124461.3 | myh7l | myosin heavy chain 7-like [Source:ZFIN;Acc:ZDB-GENE-061027-393] | NA | NA |
| OG0000014 | ENSDARG00000079782 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000079782.7 | ENSDART00000128784 | ENSDART00000128784.4 | myh7l | myosin heavy chain 7-like [Source:ZFIN;Acc:ZDB-GENE-061027-393] | ENSDARP00000110789 | ENSDARP00000110789.2 |
| OG0000014 | ENSDARG00000079782 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000079782.7 | ENSDART00000152105 | ENSDART00000152105.2 | myh7l | myosin heavy chain 7-like [Source:ZFIN;Acc:ZDB-GENE-061027-393] | ENSDARP00000126376 | ENSDARP00000126376.1 |
| OG0000014 | ENSDARG00000079782 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000079782.7 | ENSDART00000123565 | ENSDART00000123565.4 | myh7l | myosin heavy chain 7-like [Source:ZFIN;Acc:ZDB-GENE-061027-393] | ENSDARP00000108435 | ENSDARP00000108435.2 |
| OG0000014 | ENSDARG00000079782 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000079782.7 | ENSDART00000146213 | ENSDART00000146213.2 | myh7l | myosin heavy chain 7-like [Source:ZFIN;Acc:ZDB-GENE-061027-393] | NA | NA |
| OG0000014 | ENSDARG00000079782 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000079782.7 | ENSDART00000141922 | ENSDART00000141922.3 | myh7l | myosin heavy chain 7-like [Source:ZFIN;Acc:ZDB-GENE-061027-393] | ENSDARP00000114031 | ENSDARP00000114031.1 |
| OG0000014 | ENSDARG00000079782 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000079782.7 | ENSDART00000184550 | ENSDART00000184550.1 | myh7l | myosin heavy chain 7-like [Source:ZFIN;Acc:ZDB-GENE-061027-393] | ENSDARP00000156227 | ENSDARP00000156227.1 |
| OG0000014 | ENSDARG00000079782 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000079782.7 | ENSDART00000191469 | ENSDART00000191469.1 | myh7l | myosin heavy chain 7-like [Source:ZFIN;Acc:ZDB-GENE-061027-393] | ENSDARP00000154100 | ENSDARP00000154100.1 |
| OG0000014 | ENSDARG00000090637 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000090637.3 | ENSDART00000126983 | ENSDART00000126983.3 | myh6 | myosin, heavy chain 6, cardiac muscle, alpha [Source:ZFIN;Acc:ZDB-GENE-031112-1] | ENSDARP00000108536 | ENSDARP00000108536.1 |
| OG0000014 | ENSDARG00000095217 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000095217.3 | ENSDART00000075210 | ENSDART00000075210.7 | zgc:66156 | zgc:66156 [Source:ZFIN;Acc:ZDB-GENE-040426-1554] | ENSDARP00000069695 | ENSDARP00000069695.7 |
| OG0000014 | ENSDARG00000095930 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000095930.3 | ENSDART00000139917 | ENSDART00000139917.3 | myha | myosin, heavy chain a [Source:ZFIN;Acc:ZDB-GENE-060531-50] | ENSDARP00000116075 | ENSDARP00000116075.2 |
| OG0000014 | ENSDARG00000095930 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000095930.3 | ENSDART00000182649 | ENSDART00000182649.1 | myha | myosin, heavy chain a [Source:ZFIN;Acc:ZDB-GENE-060531-50] | ENSDARP00000149659 | ENSDARP00000149659.1 |
| OG0000014 | ENSDARG00000098747 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000098747.2 | ENSDART00000160672 | ENSDART00000160672.2 | CU633479.1 | myosin-7-like [Source:NCBI gene;Acc:100329748] | ENSDARP00000139175 | ENSDARP00000139175.1 |
| OG0000014 | ENSDARG00000099115 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000099115.2 | ENSDART00000164612 | ENSDART00000164612.2 | smyhc2 | slow myosin heavy chain 2 [Source:ZFIN;Acc:ZDB-GENE-070822-12] | ENSDARP00000140319 | ENSDARP00000140319.2 |
| OG0000014 | ENSDARG00000099115 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000099115.2 | ENSDART00000166224 | ENSDART00000166224.2 | smyhc2 | slow myosin heavy chain 2 [Source:ZFIN;Acc:ZDB-GENE-070822-12] | ENSDARP00000131677 | ENSDARP00000131677.2 |
| OG0000014 | ENSDARG00000099959 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000099959.2 | ENSDART00000171543 | ENSDART00000171543.2 | smyhc1 | slow myosin heavy chain 1 [Source:ZFIN;Acc:ZDB-GENE-030131-271] | ENSDARP00000139007 | ENSDARP00000139007.2 |
| OG0000014 | ENSDARG00000099959 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000099959.2 | ENSDART00000169315 | ENSDART00000169315.2 | smyhc1 | slow myosin heavy chain 1 [Source:ZFIN;Acc:ZDB-GENE-030131-271] | ENSDARP00000135954 | ENSDARP00000135954.1 |
| OG0000014 | ENSDARG00000102414 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000102414.2 | ENSDART00000098072 | ENSDART00000098072.5 | myhz1.1 | myosin, heavy polypeptide 1.1, skeletal muscle [Source:ZFIN;Acc:ZDB-GENE-000322-5] | ENSDARP00000088845 | ENSDARP00000088845.5 |
| OG0000014 | ENSDARG00000103837 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000103837.2 | ENSDART00000166578 | ENSDART00000166578.2 | CU633479.2 | myosin-7 [Source:NCBI gene;Acc:100329813] | ENSDARP00000139186 | ENSDARP00000139186.1 |
| OG0000014 | ENSDARG00000103969 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000103969.2 | ENSDART00000162635 | ENSDART00000162635.2 | smyhc2 | slow myosin heavy chain 2 [Source:ZFIN;Acc:ZDB-GENE-070822-12] | ENSDARP00000141470 | ENSDARP00000141470.2 |
| OG0000014 | ENSDARG00000109512 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000109512.1 | ENSDART00000185072 | ENSDART00000185072.1 | CU633479.3 | myosin-7 [Source:NCBI gene;Acc:100329813] | ENSDARP00000153341 | ENSDARP00000153341.1 |
| OG0000014 | ENSDARG00000109512 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000109512.1 | ENSDART00000185726 | ENSDART00000185726.1 | CU633479.3 | myosin-7 [Source:NCBI gene;Acc:100329813] | ENSDARP00000149817 | ENSDARP00000149817.1 |
| OG0000014 | ENSDARG00000110596 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000110596.1 | ENSDART00000189179 | ENSDART00000189179.1 | CABZ01079179.1 | NA | ENSDARP00000156229 | ENSDARP00000156229.1 |
| OG0000014 | ENSDARG00000112287 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000112287.1 | ENSDART00000158134 | ENSDART00000158134.2 | zgc:66156 | zgc:66156 [Source:ZFIN;Acc:ZDB-GENE-040426-1554] | ENSDARP00000132925 | ENSDARP00000132925.2 |
| OG0000014 | ENSDARG00000114031 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000114031.1 | ENSDART00000168100 | ENSDART00000168100.2 | smyhc3 | slow myosin heavy chain 3 [Source:ZFIN;Acc:ZDB-GENE-080930-1] | ENSDARP00000137611 | ENSDARP00000137611.2 |
| OG0000014 | ENSDARG00000114591 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000114591.1 | ENSDART00000188194 | ENSDART00000188194.1 | CU633479.4 | myosin-7-like [Source:NCBI gene;Acc:100329748] | ENSDARP00000154767 | ENSDARP00000154767.1 |
| OG0000014 | ENSDARG00000114591 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000114591.1 | ENSDART00000181710 | ENSDART00000181710.1 | CU633479.4 | myosin-7-like [Source:NCBI gene;Acc:100329748] | ENSDARP00000149749 | ENSDARP00000149749.1 |
| OG0000014 | ENSDARG00000114818 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000114818.1 | ENSDART00000172073 | ENSDART00000172073.2 | CU633479.5 | NA | ENSDARP00000145835 | ENSDARP00000145835.1 |
| OG0000014 | ENSDARG00000115916 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000115916.1 | ENSDART00000188077 | ENSDART00000188077.1 | smyhc1 | slow myosin heavy chain 1 [Source:ZFIN;Acc:ZDB-GENE-030131-271] | ENSDARP00000149625 | ENSDARP00000149625.1 |
| OG0000014 | ENSDARG00000115916 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000115916.1 | ENSDART00000184976 | ENSDART00000184976.1 | smyhc1 | slow myosin heavy chain 1 [Source:ZFIN;Acc:ZDB-GENE-030131-271] | ENSDARP00000147115 | ENSDARP00000147115.1 |
| OG0000014 | ENSDARG00000116413 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000116413.1 | ENSDART00000191252 | ENSDART00000191252.1 | smyhc3 | slow myosin heavy chain 3 [Source:ZFIN;Acc:ZDB-GENE-080930-1] | ENSDARP00000149903 | ENSDARP00000149903.1 |
| OG0000014 | ENSDARG00000116413 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000116413.1 | ENSDART00000183411 | ENSDART00000183411.1 | smyhc3 | slow myosin heavy chain 3 [Source:ZFIN;Acc:ZDB-GENE-080930-1] | ENSDARP00000151247 | ENSDARP00000151247.1 |
| OG0000014 | ENSDARG00000116413 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000116413.1 | ENSDART00000189555 | ENSDART00000189555.1 | smyhc3 | slow myosin heavy chain 3 [Source:ZFIN;Acc:ZDB-GENE-080930-1] | ENSDARP00000145917 | ENSDARP00000145917.1 |
| OG0000015 | ENSDARG00000025783 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000025783.10 | ENSDART00000166030 | ENSDART00000166030.2 | si:ch211-125e6.11 | si:ch211-125e6.11 [Source:ZFIN;Acc:ZDB-GENE-070912-35] | ENSDARP00000134352 | ENSDARP00000134352.2 |
| OG0000015 | ENSDARG00000025783 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000025783.10 | ENSDART00000055897 | ENSDART00000055897.6 | si:ch211-125e6.11 | si:ch211-125e6.11 [Source:ZFIN;Acc:ZDB-GENE-070912-35] | ENSDARP00000055896 | ENSDARP00000055896.5 |
| OG0000015 | ENSDARG00000038321 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000038321.8 | ENSDART00000100918 | ENSDART00000100918.6 | zgc:172053 | zgc:172053 [Source:ZFIN;Acc:ZDB-GENE-080219-25] | ENSDARP00000091691 | ENSDARP00000091691.4 |
| OG0000015 | ENSDARG00000038321 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000038321.8 | ENSDART00000165748 | ENSDART00000165748.2 | zgc:172053 | zgc:172053 [Source:ZFIN;Acc:ZDB-GENE-080219-25] | ENSDARP00000132864 | ENSDARP00000132864.1 |
| OG0000015 | ENSDARG00000041248 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000041248.10 | ENSDART00000152934 | ENSDART00000152934.3 | si:dkey-241l7.6 | si:dkey-241l7.6 [Source:ZFIN;Acc:ZDB-GENE-041014-235] | ENSDARP00000127254 | ENSDARP00000127254.1 |
| OG0000015 | ENSDARG00000041248 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000041248.10 | ENSDART00000152979 | ENSDART00000152979.2 | si:dkey-241l7.6 | si:dkey-241l7.6 [Source:ZFIN;Acc:ZDB-GENE-041014-235] | NA | NA |
| OG0000015 | ENSDARG00000041248 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000041248.10 | ENSDART00000060466 | ENSDART00000060466.7 | si:dkey-241l7.6 | si:dkey-241l7.6 [Source:ZFIN;Acc:ZDB-GENE-041014-235] | ENSDARP00000060465 | ENSDARP00000060465.5 |
| OG0000015 | ENSDARG00000051993 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000051993.8 | ENSDART00000073717 | ENSDART00000073717.6 | si:dkey-9i23.4 | si:dkey-9i23.4 [Source:ZFIN;Acc:ZDB-GENE-090313-363] | ENSDARP00000068207 | ENSDARP00000068207.5 |
| OG0000015 | ENSDARG00000051993 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000051993.8 | ENSDART00000146718 | ENSDART00000146718.2 | si:dkey-9i23.4 | si:dkey-9i23.4 [Source:ZFIN;Acc:ZDB-GENE-090313-363] | NA | NA |
| OG0000015 | ENSDARG00000055833 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000055833.5 | ENSDART00000110066 | ENSDART00000110066.3 | lectin | lectin [Source:ZFIN;Acc:ZDB-GENE-070912-438] | ENSDARP00000102618 | ENSDARP00000102618.2 |
| OG0000015 | ENSDARG00000055833 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000055833.5 | ENSDART00000138871 | ENSDART00000138871.3 | lectin | lectin [Source:ZFIN;Acc:ZDB-GENE-070912-438] | ENSDARP00000122076 | ENSDARP00000122076.1 |
| OG0000015 | ENSDARG00000069381 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000069381.6 | ENSDART00000048550 | ENSDART00000048550.8 | si:ch211-125e6.5 | si:ch211-125e6.5 [Source:ZFIN;Acc:ZDB-GENE-070912-39] | ENSDARP00000048549 | ENSDARP00000048549.6 |
| OG0000015 | ENSDARG00000069381 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000069381.6 | ENSDART00000161182 | ENSDART00000161182.2 | si:ch211-125e6.5 | si:ch211-125e6.5 [Source:ZFIN;Acc:ZDB-GENE-070912-39] | ENSDARP00000137030 | ENSDARP00000137030.1 |
| OG0000015 | ENSDARG00000076122 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000076122.5 | ENSDART00000137862 | ENSDART00000137862.2 | si:ch211-160b11.4 | si:ch211-160b11.4 [Source:ZFIN;Acc:ZDB-GENE-081104-142] | ENSDARP00000119287 | ENSDARP00000119287.1 |
| OG0000015 | ENSDARG00000079043 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000079043.5 | ENSDART00000143719 | ENSDART00000143719.3 | si:dkeyp-75b4.10 | si:dkeyp-75b4.10 [Source:ZFIN;Acc:ZDB-GENE-090313-394] | ENSDARP00000122934 | ENSDARP00000122934.1 |
| OG0000015 | ENSDARG00000079043 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000079043.5 | ENSDART00000110749 | ENSDART00000110749.4 | si:dkeyp-75b4.10 | si:dkeyp-75b4.10 [Source:ZFIN;Acc:ZDB-GENE-090313-394] | ENSDARP00000102128 | ENSDARP00000102128.2 |
| OG0000015 | ENSDARG00000086956 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000086956.6 | ENSDART00000060458 | ENSDART00000060458.8 | si:dkey-241l7.3 | si:dkey-241l7.3 [Source:ZFIN;Acc:ZDB-GENE-041014-239] | ENSDARP00000060457 | ENSDARP00000060457.5 |
| OG0000015 | ENSDARG00000086956 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000086956.6 | ENSDART00000153400 | ENSDART00000153400.3 | si:dkey-241l7.3 | si:dkey-241l7.3 [Source:ZFIN;Acc:ZDB-GENE-041014-239] | ENSDARP00000127402 | ENSDARP00000127402.1 |
| OG0000015 | ENSDARG00000086956 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000086956.6 | ENSDART00000152961 | ENSDART00000152961.2 | si:dkey-241l7.3 | si:dkey-241l7.3 [Source:ZFIN;Acc:ZDB-GENE-041014-239] | ENSDARP00000127264 | ENSDARP00000127264.1 |
| OG0000015 | ENSDARG00000088989 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000088989.5 | ENSDART00000152894 | ENSDART00000152894.2 | si:dkey-241l7.5 | si:dkey-241l7.5 [Source:ZFIN;Acc:ZDB-GENE-041014-237] | ENSDARP00000127453 | ENSDARP00000127453.1 |
| OG0000015 | ENSDARG00000088989 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000088989.5 | ENSDART00000123026 | ENSDART00000123026.4 | si:dkey-241l7.5 | si:dkey-241l7.5 [Source:ZFIN;Acc:ZDB-GENE-041014-237] | ENSDARP00000107173 | ENSDARP00000107173.2 |
| OG0000015 | ENSDARG00000089478 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000089478.5 | ENSDART00000130767 | ENSDART00000130767.4 | si:dkey-241l7.4 | si:dkey-241l7.4 [Source:ZFIN;Acc:ZDB-GENE-041014-238] | ENSDARP00000109765 | ENSDARP00000109765.2 |
| OG0000015 | ENSDARG00000089478 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000089478.5 | ENSDART00000152871 | ENSDART00000152871.2 | si:dkey-241l7.4 | si:dkey-241l7.4 [Source:ZFIN;Acc:ZDB-GENE-041014-238] | ENSDARP00000127261 | ENSDARP00000127261.1 |
| OG0000015 | ENSDARG00000089478 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000089478.5 | ENSDART00000183562 | ENSDART00000183562.1 | si:dkey-241l7.4 | si:dkey-241l7.4 [Source:ZFIN;Acc:ZDB-GENE-041014-238] | ENSDARP00000156653 | ENSDARP00000156653.1 |
| OG0000015 | ENSDARG00000092090 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000092090.3 | ENSDART00000134029 | ENSDART00000134029.3 | si:ch211-125e6.12 | si:ch211-125e6.12 [Source:ZFIN;Acc:ZDB-GENE-070912-36] | ENSDARP00000121314 | ENSDARP00000121314.1 |
| OG0000015 | ENSDARG00000092090 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000092090.3 | ENSDART00000053061 | ENSDART00000053061.6 | si:ch211-125e6.12 | si:ch211-125e6.12 [Source:ZFIN;Acc:ZDB-GENE-070912-36] | ENSDARP00000053060 | ENSDARP00000053060.4 |
| OG0000015 | ENSDARG00000092459 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000092459.3 | ENSDART00000145895 | ENSDART00000145895.2 | si:dkey-9i23.5 | si:dkey-9i23.5 [Source:ZFIN;Acc:ZDB-GENE-090313-364] | ENSDARP00000121744 | ENSDARP00000121744.1 |
| OG0000015 | ENSDARG00000094183 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000094183.3 | ENSDART00000135387 | ENSDART00000135387.2 | si:ch211-125e6.14 | si:ch211-125e6.14 [Source:ZFIN;Acc:ZDB-GENE-070912-38] | ENSDARP00000115611 | ENSDARP00000115611.1 |
| OG0000015 | ENSDARG00000094370 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000094370.4 | ENSDART00000100893 | ENSDART00000100893.6 | si:ch211-125e6.13 | si:ch211-125e6.13 [Source:ZFIN;Acc:ZDB-GENE-070912-37] | ENSDARP00000091666 | ENSDARP00000091666.4 |
| OG0000015 | ENSDARG00000094370 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000094370.4 | ENSDART00000113451 | ENSDART00000113451.4 | si:ch211-125e6.13 | si:ch211-125e6.13 [Source:ZFIN;Acc:ZDB-GENE-070912-37] | ENSDARP00000103979 | ENSDARP00000103979.3 |
| OG0000015 | ENSDARG00000105335 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000105335.2 | ENSDART00000173226 | ENSDART00000173226.2 | si:dkey-241l7.2 | si:dkey-241l7.2 [Source:ZFIN;Acc:ZDB-GENE-041014-240] | ENSDARP00000142290 | ENSDARP00000142290.1 |
| OG0000015 | ENSDARG00000105335 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000105335.2 | ENSDART00000173317 | ENSDART00000173317.2 | si:dkey-241l7.2 | si:dkey-241l7.2 [Source:ZFIN;Acc:ZDB-GENE-041014-240] | ENSDARP00000142094 | ENSDARP00000142094.1 |
| OG0000015 | ENSDARG00000105335 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000105335.2 | ENSDART00000173215 | ENSDART00000173215.2 | si:dkey-241l7.2 | si:dkey-241l7.2 [Source:ZFIN;Acc:ZDB-GENE-041014-240] | ENSDARP00000142226 | ENSDARP00000142226.1 |
| OG0000015 | ENSDARG00000115642 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000115642.1 | ENSDART00000184702 | ENSDART00000184702.1 | BX511259.2 | NA | ENSDARP00000152259 | ENSDARP00000152259.1 |
| OG0000017 | ENSDARG00000068996 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000068996.4 | ENSDART00000055913 | ENSDART00000055913.6 | hist2h2l | histone 2, H2, like [Source:NCBI gene;Acc:386920] | ENSDARP00000055912 | ENSDARP00000055912.4 |
| OG0000017 | ENSDARG00000070289 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000070289.5 | ENSDART00000152388 | ENSDART00000152388.2 | si:ch211-113a14.22 | si:ch211-113a14.22 [Source:ZFIN;Acc:ZDB-GENE-121214-203] | ENSDARP00000126757 | ENSDARP00000126757.1 |
| OG0000017 | ENSDARG00000070297 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000070297.5 | ENSDART00000152766 | ENSDART00000152766.2 | CR354435.1 | si:ch211-113a14.28 [Source:NCBI gene;Acc:561322] | ENSDARP00000127042 | ENSDARP00000127042.1 |
| OG0000017 | ENSDARG00000075482 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000075482.3 | ENSDART00000109316 | ENSDART00000109316.3 | zgc:173587 | zgc:173587 [Source:ZFIN;Acc:ZDB-GENE-071004-56] | ENSDARP00000101525 | ENSDARP00000101525.2 |
| OG0000017 | ENSDARG00000078941 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000078941.4 | ENSDART00000114598 | ENSDART00000114598.4 | ano9a | anoctamin 9a [Source:ZFIN;Acc:ZDB-GENE-071004-46] | ENSDARP00000102775 | ENSDARP00000102775.2 |
| OG0000017 | ENSDARG00000088276 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000088276.4 | ENSDART00000143995 | ENSDART00000143995.2 | H2BK1 | si:ch211-190p8.2 [Source:ZFIN;Acc:ZDB-GENE-070424-145] | ENSDARP00000118326 | ENSDARP00000118326.1 |
| OG0000017 | ENSDARG00000089039 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000089039.3 | ENSDART00000109751 | ENSDART00000109751.4 | zgc:173585 | zgc:173585 [Source:ZFIN;Acc:ZDB-GENE-070822-26] | ENSDARP00000099813 | ENSDARP00000099813.2 |
| OG0000017 | ENSDARG00000091728 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000091728.4 | ENSDART00000126590 | ENSDART00000126590.3 | zgc:114046 | zgc:114046 [Source:ZFIN;Acc:ZDB-GENE-050320-24] | ENSDARP00000111194 | ENSDARP00000111194.3 |
| OG0000017 | ENSDARG00000091728 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000091728.4 | ENSDART00000156508 | ENSDART00000156508.2 | zgc:114046 | zgc:114046 [Source:ZFIN;Acc:ZDB-GENE-050320-24] | ENSDARP00000127763 | ENSDARP00000127763.1 |
| OG0000017 | ENSDARG00000099514 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000099514.3 | ENSDART00000173160 | ENSDART00000173160.2 | zgc:112234 | zgc:112234 [Source:NCBI gene;Acc:554097] | ENSDARP00000142138 | ENSDARP00000142138.1 |
| OG0000017 | ENSDARG00000100259 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000100259.3 | ENSDART00000111053 | ENSDART00000111053.4 | zgc:171759 | zgc:171759 [Source:ZFIN;Acc:ZDB-GENE-071004-32] | ENSDARP00000103937 | ENSDARP00000103937.2 |
| OG0000017 | ENSDARG00000102806 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000102806.3 | ENSDART00000145370 | ENSDART00000145370.4 | zgc:112234 | zgc:112234 [Source:NCBI gene;Acc:554097] | ENSDARP00000116739 | ENSDARP00000116739.2 |
| OG0000017 | ENSDARG00000104501 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000104501.2 | ENSDART00000169756 | ENSDART00000169756.2 | FP236812.1 | histone H2B 1/2 [Source:NCBI gene;Acc:100329560] | ENSDARP00000139362 | ENSDARP00000139362.1 |
| OG0000017 | ENSDARG00000104588 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000104588.3 | ENSDART00000159542 | ENSDART00000159542.3 | zgc:112234 | zgc:112234 [Source:NCBI gene;Acc:554097] | ENSDARP00000135716 | ENSDARP00000135716.1 |
| OG0000017 | ENSDARG00000105340 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000105340.2 | ENSDART00000173413 | ENSDART00000173413.2 | zgc:112234 | zgc:112234 [Source:NCBI gene;Acc:554097] | ENSDARP00000142329 | ENSDARP00000142329.1 |
| OG0000017 | ENSDARG00000105384 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000105384.2 | ENSDART00000172790 | ENSDART00000172790.2 | si:dkey-23a13.22 | si:dkey-23a13.22 [Source:ZFIN;Acc:ZDB-GENE-160113-78] | ENSDARP00000142232 | ENSDARP00000142232.1 |
| OG0000017 | ENSDARG00000105393 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000105393.2 | ENSDART00000173158 | ENSDART00000173158.2 | zgc:112234 | zgc:112234 [Source:NCBI gene;Acc:554097] | ENSDARP00000142103 | ENSDARP00000142103.1 |
| OG0000017 | ENSDARG00000105397 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000105397.2 | ENSDART00000173232 | ENSDART00000173232.2 | si:ch211-113a14.22 | si:ch211-113a14.22 [Source:ZFIN;Acc:ZDB-GENE-121214-203] | ENSDARP00000142583 | ENSDARP00000142583.1 |
| OG0000017 | ENSDARG00000105414 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000105414.2 | ENSDART00000173332 | ENSDART00000173332.2 | zgc:112234 | zgc:112234 [Source:NCBI gene;Acc:554097] | ENSDARP00000142542 | ENSDARP00000142542.1 |
| OG0000017 | ENSDARG00000105468 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000105468.2 | ENSDART00000173426 | ENSDART00000173426.2 | zgc:112234 | zgc:112234 [Source:NCBI gene;Acc:554097] | ENSDARP00000142187 | ENSDARP00000142187.1 |
| OG0000017 | ENSDARG00000105483 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000105483.2 | ENSDART00000173010 | ENSDART00000173010.2 | zgc:112234 | zgc:112234 [Source:NCBI gene;Acc:554097] | ENSDARP00000142288 | ENSDARP00000142288.1 |
| OG0000017 | ENSDARG00000105507 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000105507.2 | ENSDART00000173138 | ENSDART00000173138.2 | zgc:112234 | zgc:112234 [Source:NCBI gene;Acc:554097] | ENSDARP00000142243 | ENSDARP00000142243.1 |
| OG0000017 | ENSDARG00000109370 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000109370.1 | ENSDART00000155850 | ENSDART00000155850.2 | hist1h2ba | histone cluster 1, H2ba [Source:ZFIN;Acc:ZDB-GENE-131127-89] | ENSDARP00000129172 | ENSDARP00000129172.1 |
| OG0000017 | ENSDARG00000109737 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000109737.1 | ENSDART00000184379 | ENSDART00000184379.1 | zgc:171759 | zgc:171759 [Source:ZFIN;Acc:ZDB-GENE-071004-32] | ENSDARP00000146810 | ENSDARP00000146810.1 |
| OG0000017 | ENSDARG00000111934 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000111934.1 | ENSDART00000156838 | ENSDART00000156838.2 | zgc:112234 | zgc:112234 [Source:NCBI gene;Acc:554097] | ENSDARP00000128269 | ENSDARP00000128269.1 |
| OG0000017 | ENSDARG00000111964 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000111964.1 | ENSDART00000186828 | ENSDART00000186828.1 | zgc:171759 | zgc:171759 [Source:ZFIN;Acc:ZDB-GENE-071004-32] | ENSDARP00000147719 | ENSDARP00000147719.1 |
| OG0000017 | ENSDARG00000112150 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000112150.1 | ENSDART00000186233 | ENSDART00000186233.1 | hist2h2l | histone 2, H2, like [Source:NCBI gene;Acc:386920] | ENSDARP00000156959 | ENSDARP00000156959.1 |
| OG0000017 | ENSDARG00000112561 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000112561.1 | ENSDART00000157206 | ENSDART00000157206.2 | si:dkey-108k21.11 | si:dkey-108k21.11 [Source:ZFIN;Acc:ZDB-GENE-131127-105] | ENSDARP00000129570 | ENSDARP00000129570.1 |
| OG0000017 | ENSDARG00000114125 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000114125.1 | ENSDART00000157137 | ENSDART00000157137.2 | si:dkey-261m9.19 | si:dkey-261m9.19 [Source:ZFIN;Acc:ZDB-GENE-131121-76] | ENSDARP00000128277 | ENSDARP00000128277.1 |
| OG0000017 | ENSDARG00000114180 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000114180.1 | ENSDART00000190053 | ENSDART00000190053.1 | FP236812.2 | histone H2B 1/2 [Source:NCBI gene;Acc:100334869] | ENSDARP00000151365 | ENSDARP00000151365.1 |
| OG0000017 | ENSDARG00000114195 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000114195.1 | ENSDART00000183481 | ENSDART00000183481.1 | zgc:171759 | zgc:171759 [Source:ZFIN;Acc:ZDB-GENE-071004-32] | ENSDARP00000152475 | ENSDARP00000152475.1 |
| OG0000017 | ENSDARG00000114405 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000114405.1 | ENSDART00000073457 | ENSDART00000073457.5 | zgc:194989 | zgc:194989 [Source:ZFIN;Acc:ZDB-GENE-080723-3] | ENSDARP00000067948 | ENSDARP00000067948.4 |
| OG0000017 | ENSDARG00000114405 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000114405.1 | ENSDART00000180682 | ENSDART00000180682.1 | zgc:194989 | zgc:194989 [Source:ZFIN;Acc:ZDB-GENE-080723-3] | ENSDARP00000145397 | ENSDARP00000145397.1 |
| OG0000017 | ENSDARG00000114895 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000114895.1 | ENSDART00000152449 | ENSDART00000152449.2 | si:ch211-113a14.22 | si:ch211-113a14.22 [Source:ZFIN;Acc:ZDB-GENE-121214-203] | ENSDARP00000126726 | ENSDARP00000126726.1 |
| OG0000017 | ENSDARG00000115938 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000115938.1 | ENSDART00000128017 | ENSDART00000128017.2 | zgc:171759 | zgc:171759 [Source:ZFIN;Acc:ZDB-GENE-071004-32] | ENSDARP00000107702 | ENSDARP00000107702.1 |
| OG0000017 | ENSDARG00000116654 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000116654.1 | ENSDART00000154377 | ENSDART00000154377.2 | NA | si:dkey-261m9.6 [Source:ZFIN;Acc:ZDB-GENE-131127-103] | ENSDARP00000129663 | ENSDARP00000129663.1 |
| OG0000018 | ENSDARG00000029406 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000029406.4 | ENSDART00000040328 | ENSDART00000040328.4 | h2ax | H2A.X variant histone [Source:NCBI gene;Acc:394048] | ENSDARP00000040327 | ENSDARP00000040327.2 |
| OG0000018 | ENSDARG00000051736 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000051736.3 | ENSDART00000073404 | ENSDART00000073404.3 | hist1h2a4 | histone cluster 1 H2A family member 4 [Source:ZFIN;Acc:ZDB-GENE-050731-6] | ENSDARP00000067895 | ENSDARP00000067895.1 |
| OG0000018 | ENSDARG00000068995 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000068995.5 | ENSDART00000100022 | ENSDART00000100022.5 | h2ax1 | H2A.X variant histone family member 1 [Source:ZFIN;Acc:ZDB-GENE-041010-42] | ENSDARP00000090794 | ENSDARP00000090794.3 |
| OG0000018 | ENSDARG00000070280 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000070280.3 | ENSDART00000103006 | ENSDART00000103006.3 | hist1h2a3 | histone cluster 1 H2A family member 3 [Source:ZFIN;Acc:ZDB-GENE-070822-28] | ENSDARP00000093780 | ENSDARP00000093780.2 |
| OG0000018 | ENSDARG00000086552 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000086552.4 | ENSDART00000172787 | ENSDART00000172787.2 | hist1h2a11 | histone cluster 1 H2A family member 11 [Source:ZFIN;Acc:ZDB-GENE-081205-1] | ENSDARP00000142331 | ENSDARP00000142331.1 |
| OG0000018 | ENSDARG00000088686 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000088686.3 | ENSDART00000172847 | ENSDART00000172847.2 | hist1h2a11 | histone cluster 1 H2A family member 11 [Source:ZFIN;Acc:ZDB-GENE-081205-1] | ENSDARP00000142422 | ENSDARP00000142422.1 |
| OG0000018 | ENSDARG00000098595 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000098595.3 | ENSDART00000173212 | ENSDART00000173212.2 | hist1h2a11 | histone cluster 1 H2A family member 11 [Source:ZFIN;Acc:ZDB-GENE-081205-1] | ENSDARP00000142141 | ENSDARP00000142141.1 |
| OG0000018 | ENSDARG00000098739 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000098739.2 | ENSDART00000159861 | ENSDART00000159861.2 | h2af1al | H2A histone family member 1a like [Source:NCBI gene;Acc:100332229] | ENSDARP00000137682 | ENSDARP00000137682.1 |
| OG0000018 | ENSDARG00000099123 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000099123.3 | ENSDART00000170763 | ENSDART00000170763.3 | CU459186.2 | histone cluster 1 H2A family member 7 [Source:NCBI gene;Acc:100006331] | ENSDARP00000134092 | ENSDARP00000134092.1 |
| OG0000018 | ENSDARG00000100024 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000100024.3 | ENSDART00000173446 | ENSDART00000173446.2 | hist1h2a6 | histone cluster 1 H2A family member 6 [Source:ZFIN;Acc:ZDB-GENE-030131-6292] | ENSDARP00000142091 | ENSDARP00000142091.1 |
| OG0000018 | ENSDARG00000100279 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000100279.3 | ENSDART00000172898 | ENSDART00000172898.2 | CU457819.1 | si:ch73-368j24.13 [Source:NCBI gene;Acc:100000574] | ENSDARP00000142535 | ENSDARP00000142535.1 |
| OG0000018 | ENSDARG00000100906 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000100906.3 | ENSDART00000123660 | ENSDART00000123660.4 | hist1h2a11 | histone cluster 1 H2A family member 11 [Source:ZFIN;Acc:ZDB-GENE-081205-1] | ENSDARP00000108828 | ENSDARP00000108828.2 |
| OG0000018 | ENSDARG00000103015 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000103015.3 | ENSDART00000130760 | ENSDART00000130760.4 | hist1h2a2 | histone cluster 1 H2A family member 2 [Source:ZFIN;Acc:ZDB-GENE-050522-93] | ENSDARP00000106877 | ENSDARP00000106877.1 |
| OG0000018 | ENSDARG00000105314 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000105314.2 | ENSDART00000173404 | ENSDART00000173404.2 | CU459186.5 | si:dkey-23a13.6 [Source:NCBI gene;Acc:103908687] | ENSDARP00000142493 | ENSDARP00000142493.1 |
| OG0000018 | ENSDARG00000105366 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000105366.2 | ENSDART00000172831 | ENSDART00000172831.2 | hist1h2a10 | histone cluster 1 H2A family member 10 [Source:ZFIN;Acc:ZDB-GENE-131127-92] | ENSDARP00000142617 | ENSDARP00000142617.1 |
| OG0000018 | ENSDARG00000105400 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000105400.2 | ENSDART00000129239 | ENSDART00000129239.3 | CU457819.3 | si:ch73-368j24.14 [Source:NCBI gene;Acc:100000783] | ENSDARP00000108417 | ENSDARP00000108417.1 |
| OG0000018 | ENSDARG00000105444 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000105444.2 | ENSDART00000147978 | ENSDART00000147978.3 | hist1h2a11 | histone cluster 1 H2A family member 11 [Source:ZFIN;Acc:ZDB-GENE-081205-1] | ENSDARP00000123619 | ENSDARP00000123619.2 |
| OG0000018 | ENSDARG00000105478 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000105478.2 | ENSDART00000173199 | ENSDART00000173199.2 | si:ch1073-153i20.5 | si:ch1073-153i20.5 [Source:ZFIN;Acc:ZDB-GENE-160113-104] | ENSDARP00000142451 | ENSDARP00000142451.1 |
| OG0000018 | ENSDARG00000109458 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000109458.1 | ENSDART00000073402 | ENSDART00000073402.3 | hist1h2a1 | histone cluster 1 H2A family member1 [Source:ZFIN;Acc:ZDB-GENE-121214-150] | ENSDARP00000067893 | ENSDARP00000067893.2 |
| OG0000018 | ENSDARG00000109755 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000109755.1 | ENSDART00000185669 | ENSDART00000185669.1 | hist1h2a3 | histone cluster 1 H2A family member 3 [Source:ZFIN;Acc:ZDB-GENE-070822-28] | ENSDARP00000153252 | ENSDARP00000153252.1 |
| OG0000018 | ENSDARG00000109926 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000109926.1 | ENSDART00000181793 | ENSDART00000181793.1 | si:ch211-113a14.19 | si:ch211-113a14.19 [Source:ZFIN;Acc:ZDB-GENE-121214-198] | ENSDARP00000153829 | ENSDARP00000153829.1 |
| OG0000018 | ENSDARG00000110429 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000110429.1 | ENSDART00000192552 | ENSDART00000192552.1 | h2ax1 | H2A.X variant histone family member 1 [Source:ZFIN;Acc:ZDB-GENE-041010-42] | ENSDARP00000149636 | ENSDARP00000149636.1 |
| OG0000018 | ENSDARG00000110809 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000110809.1 | ENSDART00000190174 | ENSDART00000190174.1 | hist1h2a3 | histone cluster 1 H2A family member 3 [Source:ZFIN;Acc:ZDB-GENE-070822-28] | ENSDARP00000149918 | ENSDARP00000149918.1 |
| OG0000018 | ENSDARG00000111536 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000111536.1 | ENSDART00000190100 | ENSDART00000190100.1 | si:ch211-113a14.19 | si:ch211-113a14.19 [Source:ZFIN;Acc:ZDB-GENE-121214-198] | ENSDARP00000157374 | ENSDARP00000157374.1 |
| OG0000018 | ENSDARG00000111648 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000111648.1 | ENSDART00000186079 | ENSDART00000186079.1 | hist1h2a3 | histone cluster 1 H2A family member 3 [Source:ZFIN;Acc:ZDB-GENE-070822-28] | ENSDARP00000147987 | ENSDARP00000147987.1 |
| OG0000018 | ENSDARG00000112593 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000112593.1 | ENSDART00000188505 | ENSDART00000188505.1 | hist1h2a3 | histone cluster 1 H2A family member 3 [Source:ZFIN;Acc:ZDB-GENE-070822-28] | ENSDARP00000147435 | ENSDARP00000147435.1 |
| OG0000018 | ENSDARG00000112840 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000112840.1 | ENSDART00000099859 | ENSDART00000099859.4 | hist1h2a10 | histone cluster 1 H2A family member 10 [Source:ZFIN;Acc:ZDB-GENE-131127-92] | ENSDARP00000090632 | ENSDARP00000090632.3 |
| OG0000018 | ENSDARG00000113399 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000113399.1 | ENSDART00000125128 | ENSDART00000125128.2 | FP236630.1 | histone cluster 1 H2A family member 9 [Source:NCBI gene;Acc:100334621] | ENSDARP00000112301 | ENSDARP00000112301.1 |
| OG0000018 | ENSDARG00000113481 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000113481.1 | ENSDART00000129969 | ENSDART00000129969.2 | si:ch211-113a14.19 | si:ch211-113a14.19 [Source:ZFIN;Acc:ZDB-GENE-121214-198] | ENSDARP00000104630 | ENSDARP00000104630.1 |
| OG0000018 | ENSDARG00000113707 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000113707.1 | ENSDART00000181344 | ENSDART00000181344.1 | si:ch211-113a14.19 | si:ch211-113a14.19 [Source:ZFIN;Acc:ZDB-GENE-121214-198] | ENSDARP00000152713 | ENSDARP00000152713.1 |
| OG0000018 | ENSDARG00000113800 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000113800.1 | ENSDART00000155060 | ENSDART00000155060.2 | si:dkey-108k21.19 | si:dkey-108k21.19 [Source:ZFIN;Acc:ZDB-GENE-131121-75] | ENSDARP00000128298 | ENSDARP00000128298.1 |
| OG0000018 | ENSDARG00000114133 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000114133.1 | ENSDART00000114908 | ENSDART00000114908.3 | hist1h2a5 | histone cluster 1 H2A family member 5 [Source:ZFIN;Acc:ZDB-GENE-131121-77] | ENSDARP00000104399 | ENSDARP00000104399.2 |
| OG0000018 | ENSDARG00000115875 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000115875.1 | ENSDART00000188079 | ENSDART00000188079.1 | si:ch211-113a14.19 | si:ch211-113a14.19 [Source:ZFIN;Acc:ZDB-GENE-121214-198] | ENSDARP00000147040 | ENSDARP00000147040.1 |
| OG0000024 | ENSDARG00000020504 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000020504.9 | ENSDART00000146211 | ENSDART00000146211.2 | h3f3b.1 | H3 histone, family 3B.1 [Source:ZFIN;Acc:ZDB-GENE-050417-65] | ENSDARP00000120344 | ENSDARP00000120344.1 |
| OG0000024 | ENSDARG00000020504 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000020504.9 | ENSDART00000145937 | ENSDART00000145937.2 | h3f3b.1 | H3 histone, family 3B.1 [Source:ZFIN;Acc:ZDB-GENE-050417-65] | NA | NA |
| OG0000024 | ENSDARG00000020504 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000020504.9 | ENSDART00000192849 | ENSDART00000192849.1 | h3f3b.1 | H3 histone, family 3B.1 [Source:ZFIN;Acc:ZDB-GENE-050417-65] | ENSDARP00000154528 | ENSDARP00000154528.1 |
| OG0000024 | ENSDARG00000033009 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000033009.7 | ENSDART00000193606 | ENSDART00000193606.1 | h3f3c | H3 histone, family 3C [Source:ZFIN;Acc:ZDB-GENE-030131-8175] | ENSDARP00000148220 | ENSDARP00000148220.1 |
| OG0000024 | ENSDARG00000033009 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000033009.7 | ENSDART00000047269 | ENSDART00000047269.7 | h3f3c | H3 histone, family 3C [Source:ZFIN;Acc:ZDB-GENE-030131-8175] | ENSDARP00000047268 | ENSDARP00000047268.5 |
| OG0000024 | ENSDARG00000045248 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000045248.7 | ENSDART00000137017 | ENSDART00000137017.2 | h3f3d | H3 histone, family 3D [Source:ZFIN;Acc:ZDB-GENE-040426-1023] | ENSDARP00000117879 | ENSDARP00000117879.1 |
| OG0000024 | ENSDARG00000051737 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000051737.2 | ENSDART00000073405 | ENSDART00000073405.2 | NA | zgc:173552 [Source:ZFIN;Acc:ZDB-GENE-080220-24] | ENSDARP00000067896 | ENSDARP00000067896.1 |
| OG0000024 | ENSDARG00000068434 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000068434.6 | ENSDART00000151600 | ENSDART00000151600.2 | h3f3b.1 | H3 histone, family 3B.1 [Source:ZFIN;Acc:ZDB-GENE-050417-65] | ENSDARP00000126130 | ENSDARP00000126130.1 |
| OG0000024 | ENSDARG00000068436 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000068436.5 | ENSDART00000098982 | ENSDART00000098982.4 | si:ch1073-429i10.3 | si:ch1073-429i10.3 [Source:ZFIN;Acc:ZDB-GENE-120214-5] | ENSDARP00000089753 | ENSDARP00000089753.2 |
| OG0000024 | ENSDARG00000068436 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000068436.5 | ENSDART00000151594 | ENSDART00000151594.2 | si:ch1073-429i10.3 | si:ch1073-429i10.3 [Source:ZFIN;Acc:ZDB-GENE-120214-5] | ENSDARP00000125972 | ENSDARP00000125972.1 |
| OG0000024 | ENSDARG00000068941 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000068941.4 | ENSDART00000089844 | ENSDART00000089844.5 | zgc:113983 | zgc:113983 [Source:ZFIN;Acc:ZDB-GENE-050626-58] | ENSDARP00000084277 | ENSDARP00000084277.3 |
| OG0000024 | ENSDARG00000094154 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000094154.2 | ENSDART00000133379 | ENSDART00000133379.2 | hist2h3c | histone cluster 2, H3c [Source:ZFIN;Acc:ZDB-GENE-070424-8] | ENSDARP00000112824 | ENSDARP00000112824.1 |
| OG0000024 | ENSDARG00000098970 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000098970.3 | ENSDART00000160575 | ENSDART00000160575.3 | NA | Histone H3.2 [Source:UniProtKB/Swiss-Prot;Acc:Q4QRF4] | ENSDARP00000130595 | ENSDARP00000130595.1 |
| OG0000024 | ENSDARG00000101720 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000101720.3 | ENSDART00000115062 | ENSDART00000115062.5 | CU459186.3 | Histone H3.2 [Source:UniProtKB/Swiss-Prot;Acc:Q4QRF4] | ENSDARP00000099321 | ENSDARP00000099321.3 |
| OG0000024 | ENSDARG00000103819 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000103819.3 | ENSDART00000167099 | ENSDART00000167099.3 | NA | Histone H3.2 [Source:UniProtKB/Swiss-Prot;Acc:Q4QRF4] | ENSDARP00000139024 | ENSDARP00000139024.1 |
| OG0000024 | ENSDARG00000105345 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000105345.2 | ENSDART00000161592 | ENSDART00000161592.3 | zgc:173552 | zgc:173552 [Source:ZFIN;Acc:ZDB-GENE-080220-24] | ENSDARP00000136534 | ENSDARP00000136534.2 |
| OG0000024 | ENSDARG00000105359 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000105359.2 | ENSDART00000166041 | ENSDART00000166041.3 | FP325123.1 | Histone H3.2 [Source:UniProtKB/Swiss-Prot;Acc:Q4QRF4] | ENSDARP00000135695 | ENSDARP00000135695.1 |
| OG0000024 | ENSDARG00000105374 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000105374.2 | ENSDART00000159524 | ENSDART00000159524.3 | CU457819.2 | Histone H3.2 [Source:UniProtKB/Swiss-Prot;Acc:Q4QRF4] | ENSDARP00000140767 | ENSDARP00000140767.2 |
| OG0000024 | ENSDARG00000105418 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000105418.2 | ENSDART00000173349 | ENSDART00000173349.2 | CU457819.4 | Histone H3.2 [Source:UniProtKB/Swiss-Prot;Acc:Q4QRF4] | ENSDARP00000142515 | ENSDARP00000142515.1 |
| OG0000024 | ENSDARG00000105459 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000105459.2 | ENSDART00000173032 | ENSDART00000173032.2 | NA | Histone H3.2 [Source:UniProtKB/Swiss-Prot;Acc:Q4QRF4] | ENSDARP00000142122 | ENSDARP00000142122.1 |
| OG0000024 | ENSDARG00000105484 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000105484.2 | ENSDART00000172825 | ENSDART00000172825.2 | FP325123.2 | Histone H3.2 [Source:UniProtKB/Swiss-Prot;Acc:Q4QRF4] | ENSDARP00000142272 | ENSDARP00000142272.1 |
| OG0000024 | ENSDARG00000105508 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000105508.2 | ENSDART00000173105 | ENSDART00000173105.2 | si:dkey-23a13.21 | si:dkey-23a13.21 [Source:ZFIN;Acc:ZDB-GENE-160113-53] | ENSDARP00000142201 | ENSDARP00000142201.1 |
| OG0000024 | ENSDARG00000110909 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000110909.1 | ENSDART00000193414 | ENSDART00000193414.1 | zgc:173552 | zgc:173552 [Source:ZFIN;Acc:ZDB-GENE-080220-24] | ENSDARP00000154015 | ENSDARP00000154015.1 |
| OG0000024 | ENSDARG00000111005 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000111005.1 | ENSDART00000188898 | ENSDART00000188898.1 | h3f3b.1 | H3 histone, family 3B.1 [Source:ZFIN;Acc:ZDB-GENE-050417-65] | ENSDARP00000157380 | ENSDARP00000157380.1 |
| OG0000024 | ENSDARG00000111396 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000111396.1 | ENSDART00000152546 | ENSDART00000152546.2 | zgc:173552 | zgc:173552 [Source:ZFIN;Acc:ZDB-GENE-080220-24] | ENSDARP00000126796 | ENSDARP00000126796.1 |
| OG0000024 | ENSDARG00000112131 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000112131.1 | ENSDART00000181917 | ENSDART00000181917.1 | zgc:173552 | zgc:173552 [Source:ZFIN;Acc:ZDB-GENE-080220-24] | ENSDARP00000155745 | ENSDARP00000155745.1 |
| OG0000024 | ENSDARG00000112175 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000112175.1 | ENSDART00000186481 | ENSDART00000186481.1 | zgc:173552 | zgc:173552 [Source:ZFIN;Acc:ZDB-GENE-080220-24] | ENSDARP00000150137 | ENSDARP00000150137.1 |
| OG0000024 | ENSDARG00000112375 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000112375.1 | ENSDART00000189008 | ENSDART00000189008.1 | CR762436.1 | Histone H3.2 [Source:UniProtKB/Swiss-Prot;Acc:Q4QRF4] | ENSDARP00000145961 | ENSDARP00000145961.1 |
| OG0000024 | ENSDARG00000112647 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000112647.1 | ENSDART00000153747 | ENSDART00000153747.2 | si:dkey-108k21.24 | si:dkey-108k21.24 [Source:ZFIN;Acc:ZDB-GENE-131121-40] | ENSDARP00000127819 | ENSDARP00000127819.1 |
| OG0000024 | ENSDARG00000112647 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000112647.1 | ENSDART00000180881 | ENSDART00000180881.1 | si:dkey-108k21.24 | si:dkey-108k21.24 [Source:ZFIN;Acc:ZDB-GENE-131121-40] | ENSDARP00000157586 | ENSDARP00000157586.1 |
| OG0000024 | ENSDARG00000112967 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000112967.1 | ENSDART00000185379 | ENSDART00000185379.1 | NA | si:dkey-261m9.8 [Source:NCBI gene;Acc:100329422] | ENSDARP00000149802 | ENSDARP00000149802.1 |
| OG0000024 | ENSDARG00000114169 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000114169.1 | ENSDART00000182484 | ENSDART00000182484.1 | CR354435.2 | Histone H3.2 [Source:UniProtKB/Swiss-Prot;Acc:Q4QRF4] | ENSDARP00000146454 | ENSDARP00000146454.1 |
| OG0000024 | ENSDARG00000114334 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000114334.1 | ENSDART00000184101 | ENSDART00000184101.1 | NA | zgc:173552 [Source:ZFIN;Acc:ZDB-GENE-080220-24] | ENSDARP00000148343 | ENSDARP00000148343.1 |
| OG0000024 | ENSDARG00000114370 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000114370.1 | ENSDART00000185663 | ENSDART00000185663.1 | FQ312024.1 | si:ch73-36p18.2 [Source:NCBI gene;Acc:100334933] | ENSDARP00000153520 | ENSDARP00000153520.1 |
| OG0000024 | ENSDARG00000114500 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000114500.1 | ENSDART00000185229 | ENSDART00000185229.1 | CU302436.1 | si:dkey-108k21.25 [Source:NCBI gene;Acc:103909883] | ENSDARP00000156321 | ENSDARP00000156321.1 |
| OG0000024 | ENSDARG00000115644 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000115644.1 | ENSDART00000129254 | ENSDART00000129254.2 | zgc:173552 | zgc:173552 [Source:ZFIN;Acc:ZDB-GENE-080220-24] | ENSDARP00000107737 | ENSDARP00000107737.2 |
| OG0000027 | ENSDARG00000003701 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000003701.9 | ENSDART00000142111 | ENSDART00000142111.2 | cldng | claudin g [Source:NCBI gene;Acc:81586] | ENSDARP00000115881 | ENSDARP00000115881.1 |
| OG0000027 | ENSDARG00000003701 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000003701.9 | ENSDART00000192758 | ENSDART00000192758.1 | cldng | claudin g [Source:NCBI gene;Acc:81586] | ENSDARP00000153981 | ENSDARP00000153981.1 |
| OG0000027 | ENSDARG00000003701 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000003701.9 | ENSDART00000015547 | ENSDART00000015547.9 | cldng | claudin g [Source:NCBI gene;Acc:81586] | ENSDARP00000015898 | ENSDARP00000015898.8 |
| OG0000027 | ENSDARG00000006580 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000006580.9 | ENSDART00000021620 | ENSDART00000021620.7 | cldnd | claudin d [Source:NCBI gene;Acc:81583] | ENSDARP00000025766 | ENSDARP00000025766.5 |
| OG0000027 | ENSDARG00000009215 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000009215.7 | ENSDART00000002128 | ENSDART00000002128.7 | zgc:112437 | zgc:112437 [Source:ZFIN;Acc:ZDB-GENE-050417-293] | ENSDARP00000025285 | ENSDARP00000025285.5 |
| OG0000027 | ENSDARG00000009544 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000009544.7 | ENSDART00000021664 | ENSDART00000021664.7 | cldnb | claudin b [Source:ZFIN;Acc:ZDB-GENE-010328-2] | ENSDARP00000013958 | ENSDARP00000013958.5 |
| OG0000027 | ENSDARG00000015955 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000015955.6 | ENSDART00000002341 | ENSDART00000002341.6 | cldnc | claudin c [Source:ZFIN;Acc:ZDB-GENE-010328-3] | ENSDARP00000002797 | ENSDARP00000002797.4 |
| OG0000027 | ENSDARG00000042357 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000042357.4 | ENSDART00000062116 | ENSDART00000062116.4 | cldnk | claudin k [Source:ZFIN;Acc:ZDB-GENE-040801-201] | ENSDARP00000062115 | ENSDARP00000062115.3 |
| OG0000027 | ENSDARG00000042357 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000042357.4 | ENSDART00000189920 | ENSDART00000189920.1 | cldnk | claudin k [Source:ZFIN;Acc:ZDB-GENE-040801-201] | ENSDARP00000146175 | ENSDARP00000146175.1 |
| OG0000027 | ENSDARG00000043128 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000043128.6 | ENSDART00000063320 | ENSDART00000063320.6 | cldne | claudin e [Source:ZFIN;Acc:ZDB-GENE-010328-5] | ENSDARP00000063319 | ENSDARP00000063319.4 |
| OG0000027 | ENSDARG00000043133 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000043133.6 | ENSDART00000146094 | ENSDART00000146094.2 | cldnf | claudin f [Source:ZFIN;Acc:ZDB-GENE-010328-6] | ENSDARP00000118625 | ENSDARP00000118625.1 |
| OG0000027 | ENSDARG00000069503 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000069503.4 | ENSDART00000181756 | ENSDART00000181756.1 | cldnh | claudin h [Source:ZFIN;Acc:ZDB-GENE-010328-8] | ENSDARP00000149154 | ENSDARP00000149154.1 |
| OG0000027 | ENSDARG00000069503 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000069503.4 | ENSDART00000101211 | ENSDART00000101211.4 | cldnh | claudin h [Source:ZFIN;Acc:ZDB-GENE-010328-8] | ENSDARP00000091985 | ENSDARP00000091985.3 |
| OG0000027 | ENSDARG00000069505 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000069505.4 | ENSDART00000101217 | ENSDART00000101217.4 | zgc:136892 | zgc:136892 [Source:ZFIN;Acc:ZDB-GENE-060421-4745] | ENSDARP00000091991 | ENSDARP00000091991.2 |
| OG0000027 | ENSDARG00000069888 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000069888.5 | ENSDART00000102086 | ENSDART00000102086.5 | cldna | claudin a [Source:ZFIN;Acc:ZDB-GENE-010328-1] | ENSDARP00000092862 | ENSDARP00000092862.3 |
| OG0000029 | ENSDARG00000001889 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000001889.8 | ENSDART00000009277 | ENSDART00000009277.8 | tuba1a | tubulin, alpha 1a [Source:ZFIN;Acc:ZDB-GENE-090507-4] | ENSDARP00000019888 | ENSDARP00000019888.7 |
| OG0000029 | ENSDARG00000006260 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000006260.13 | ENSDART00000151822 | ENSDART00000151822.2 | tuba8l4 | tubulin, alpha 8 like 4 [Source:ZFIN;Acc:ZDB-GENE-040426-860] | ENSDARP00000125797 | ENSDARP00000125797.1 |
| OG0000029 | ENSDARG00000006260 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000006260.13 | ENSDART00000039443 | ENSDART00000039443.9 | tuba8l4 | tubulin, alpha 8 like 4 [Source:ZFIN;Acc:ZDB-GENE-040426-860] | ENSDARP00000029933 | ENSDARP00000029933.7 |
| OG0000029 | ENSDARG00000006260 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000006260.13 | ENSDART00000151271 | ENSDART00000151271.3 | tuba8l4 | tubulin, alpha 8 like 4 [Source:ZFIN;Acc:ZDB-GENE-040426-860] | ENSDARP00000125988 | ENSDARP00000125988.1 |
| OG0000029 | ENSDARG00000006260 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000006260.13 | ENSDART00000177960 | ENSDART00000177960.2 | tuba8l4 | tubulin, alpha 8 like 4 [Source:ZFIN;Acc:ZDB-GENE-040426-860] | ENSDARP00000144369 | ENSDARP00000144369.2 |
| OG0000029 | ENSDARG00000031164 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000031164.6 | ENSDART00000040204 | ENSDART00000040204.6 | tuba8l2 | tubulin, alpha 8 like 2 [Source:ZFIN;Acc:ZDB-GENE-040426-1646] | ENSDARP00000040203 | ENSDARP00000040203.5 |
| OG0000029 | ENSDARG00000031164 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000031164.6 | ENSDART00000122569 | ENSDART00000122569.3 | tuba8l2 | tubulin, alpha 8 like 2 [Source:ZFIN;Acc:ZDB-GENE-040426-1646] | NA | NA |
| OG0000029 | ENSDARG00000036700 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000036700.7 | ENSDART00000053304 | ENSDART00000053304.6 | si:ch211-114n24.6 | si:ch211-114n24.6 [Source:ZFIN;Acc:ZDB-GENE-120214-26] | ENSDARP00000053303 | ENSDARP00000053303.5 |
| OG0000029 | ENSDARG00000042708 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000042708.6 | ENSDART00000062671 | ENSDART00000062671.6 | tuba8l | tubulin, alpha 8 like [Source:ZFIN;Acc:ZDB-GENE-030131-9167] | ENSDARP00000062670 | ENSDARP00000062670.4 |
| OG0000029 | ENSDARG00000045014 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000045014.7 | ENSDART00000171415 | ENSDART00000171415.2 | tuba2 | tubulin, alpha 2 [Source:ZFIN;Acc:ZDB-GENE-040426-1970] | NA | NA |
| OG0000029 | ENSDARG00000045014 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000045014.7 | ENSDART00000066177 | ENSDART00000066177.6 | tuba2 | tubulin, alpha 2 [Source:ZFIN;Acc:ZDB-GENE-040426-1970] | ENSDARP00000066176 | ENSDARP00000066176.4 |
| OG0000029 | ENSDARG00000045367 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000045367.10 | ENSDART00000123518 | ENSDART00000123518.4 | tuba1b | tubulin, alpha 1b [Source:ZFIN;Acc:ZDB-GENE-030822-1] | ENSDARP00000105094 | ENSDARP00000105094.2 |
| OG0000029 | ENSDARG00000045367 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000045367.10 | ENSDART00000164616 | ENSDART00000164616.2 | tuba1b | tubulin, alpha 1b [Source:ZFIN;Acc:ZDB-GENE-030822-1] | ENSDARP00000133394 | ENSDARP00000133394.2 |
| OG0000029 | ENSDARG00000055216 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000055216.6 | ENSDART00000077539 | ENSDART00000077539.6 | tuba1c | tubulin, alpha 1c [Source:ZFIN;Acc:ZDB-GENE-061114-1] | ENSDARP00000072006 | ENSDARP00000072006.4 |
| OG0000029 | ENSDARG00000055216 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000055216.6 | ENSDART00000185884 | ENSDART00000185884.1 | tuba1c | tubulin, alpha 1c [Source:ZFIN;Acc:ZDB-GENE-061114-1] | ENSDARP00000156734 | ENSDARP00000156734.1 |
| OG0000029 | ENSDARG00000070155 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000070155.6 | ENSDART00000102715 | ENSDART00000102715.5 | tuba8l3 | tubulin, alpha 8 like 3 [Source:ZFIN;Acc:ZDB-GENE-040801-77] | ENSDARP00000093490 | ENSDARP00000093490.4 |
| OG0000029 | ENSDARG00000074289 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000074289.4 | ENSDART00000180416 | ENSDART00000180416.1 | tuba4l | tubulin, alpha 4 like [Source:ZFIN;Acc:ZDB-GENE-030131-5588] | ENSDARP00000154014 | ENSDARP00000154014.1 |
| OG0000029 | ENSDARG00000074289 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000074289.4 | ENSDART00000115157 | ENSDART00000115157.4 | tuba4l | tubulin, alpha 4 like [Source:ZFIN;Acc:ZDB-GENE-030131-5588] | ENSDARP00000098004 | ENSDARP00000098004.2 |
| OG0000029 | ENSDARG00000074289 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000074289.4 | ENSDART00000161163 | ENSDART00000161163.2 | tuba4l | tubulin, alpha 4 like [Source:ZFIN;Acc:ZDB-GENE-030131-5588] | ENSDARP00000141066 | ENSDARP00000141066.1 |
| OG0000029 | ENSDARG00000094466 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000094466.3 | ENSDART00000102713 | ENSDART00000102713.6 | si:ch73-199e17.1 | si:ch73-199e17.1 [Source:ZFIN;Acc:ZDB-GENE-100921-8] | ENSDARP00000093488 | ENSDARP00000093488.4 |
| OG0000029 | ENSDARG00000094466 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000094466.3 | ENSDART00000016360 | ENSDART00000016360.7 | si:ch73-199e17.1 | si:ch73-199e17.1 [Source:ZFIN;Acc:ZDB-GENE-100921-8] | ENSDARP00000009320 | ENSDARP00000009320.6 |
| OG0000029 | ENSDARG00000104643 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000104643.3 | ENSDART00000171267 | ENSDART00000171267.2 | tuba7l | tubulin, alpha 7 like [Source:ZFIN;Acc:ZDB-GENE-040704-78] | ENSDARP00000133235 | ENSDARP00000133235.1 |
| OG0000031 | ENSDARG00000039164 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000039164.8 | ENSDART00000057224 | ENSDART00000057224.8 | mhc1uma | major histocompatibility complex class I UMA [Source:ZFIN;Acc:ZDB-GENE-140820-1] | ENSDARP00000057223 | ENSDARP00000057223.5 |
| OG0000031 | ENSDARG00000039164 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000039164.8 | ENSDART00000184758 | ENSDART00000184758.1 | mhc1uma | major histocompatibility complex class I UMA [Source:ZFIN;Acc:ZDB-GENE-140820-1] | ENSDARP00000149058 | ENSDARP00000149058.1 |
| OG0000031 | ENSDARG00000039164 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000039164.8 | ENSDART00000187174 | ENSDART00000187174.1 | mhc1uma | major histocompatibility complex class I UMA [Source:ZFIN;Acc:ZDB-GENE-140820-1] | ENSDARP00000150845 | ENSDARP00000150845.1 |
| OG0000031 | ENSDARG00000039164 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000039164.8 | ENSDART00000190612 | ENSDART00000190612.1 | mhc1uma | major histocompatibility complex class I UMA [Source:ZFIN;Acc:ZDB-GENE-140820-1] | ENSDARP00000154842 | ENSDARP00000154842.1 |
| OG0000031 | ENSDARG00000039164 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000039164.8 | ENSDART00000187928 | ENSDART00000187928.1 | mhc1uma | major histocompatibility complex class I UMA [Source:ZFIN;Acc:ZDB-GENE-140820-1] | ENSDARP00000148037 | ENSDARP00000148037.1 |
| OG0000031 | ENSDARG00000059039 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000059039.6 | ENSDART00000188774 | ENSDART00000188774.1 | FO904903.1 | major histocompatibility complex class I ULA [Source:NCBI gene;Acc:796419] | ENSDARP00000154103 | ENSDARP00000154103.1 |
| OG0000031 | ENSDARG00000059039 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000059039.6 | ENSDART00000082034 | ENSDART00000082034.6 | FO904903.1 | major histocompatibility complex class I ULA [Source:NCBI gene;Acc:796419] | ENSDARP00000076471 | ENSDARP00000076471.4 |
| OG0000031 | ENSDARG00000075963 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000075963.5 | ENSDART00000151233 | ENSDART00000151233.2 | mhc1uba | major histocompatibility complex class I UBA [Source:ZFIN;Acc:ZDB-GENE-990415-145] | NA | NA |
| OG0000031 | ENSDARG00000075963 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000075963.5 | ENSDART00000009689 | ENSDART00000009689.8 | mhc1uba | major histocompatibility complex class I UBA [Source:ZFIN;Acc:ZDB-GENE-990415-145] | ENSDARP00000020667 | ENSDARP00000020667.7 |
| OG0000031 | ENSDARG00000075963 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000075963.5 | ENSDART00000151649 | ENSDART00000151649.2 | mhc1uba | major histocompatibility complex class I UBA [Source:ZFIN;Acc:ZDB-GENE-990415-145] | NA | NA |
| OG0000031 | ENSDARG00000092731 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000092731.4 | ENSDART00000133954 | ENSDART00000133954.4 | mhc1uka | major histocompatibility complex class I UKA [Source:ZFIN;Acc:ZDB-GENE-060825-152] | ENSDARP00000117273 | ENSDARP00000117273.2 |
| OG0000031 | ENSDARG00000092731 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000092731.4 | ENSDART00000146579 | ENSDART00000146579.3 | mhc1uka | major histocompatibility complex class I UKA [Source:ZFIN;Acc:ZDB-GENE-060825-152] | ENSDARP00000121274 | ENSDARP00000121274.3 |
| OG0000032 | ENSDARG00000035150 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000035150.7 | ENSDART00000141323 | ENSDART00000141323.2 | drll.2 | draculin-like, tandem duplicate 2 [Source:ZFIN;Acc:ZDB-GENE-060531-125] | ENSDARP00000117215 | ENSDARP00000117215.1 |
| OG0000032 | ENSDARG00000035151 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000035151.8 | ENSDART00000134314 | ENSDART00000134314.2 | drll.1 | draculin-like, tandem duplicate 1 [Source:ZFIN;Acc:ZDB-GENE-060531-124] | ENSDARP00000120726 | ENSDARP00000120726.1 |
| OG0000032 | ENSDARG00000069869 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000069869.4 | ENSDART00000080437 | ENSDART00000080437.5 | zgc:113030 | zgc:113030 [Source:ZFIN;Acc:ZDB-GENE-050522-528] | ENSDARP00000074886 | ENSDARP00000074886.3 |
| OG0000032 | ENSDARG00000076807 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000076807.6 | ENSDART00000153642 | ENSDART00000153642.2 | zgc:174268 | zgc:174268 [Source:ZFIN;Acc:ZDB-GENE-080219-18] | ENSDARP00000127493 | ENSDARP00000127493.1 |
| OG0000032 | ENSDARG00000076807 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000076807.6 | ENSDART00000189858 | ENSDART00000189858.1 | zgc:174268 | zgc:174268 [Source:ZFIN;Acc:ZDB-GENE-080219-18] | ENSDARP00000149254 | ENSDARP00000149254.1 |
| OG0000032 | ENSDARG00000078728 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000078728.5 | ENSDART00000108499 | ENSDART00000108499.3 | znf1068 | zinc finger protein 1068 [Source:ZFIN;Acc:ZDB-GENE-080215-12] | ENSDARP00000102555 | ENSDARP00000102555.2 |
| OG0000032 | ENSDARG00000090740 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000090740.3 | ENSDART00000128960 | ENSDART00000128960.3 | zmp:0000001003 | zmp:0000001003 [Source:ZFIN;Acc:ZDB-GENE-130530-1006] | ENSDARP00000111406 | ENSDARP00000111406.3 |
| OG0000032 | ENSDARG00000094216 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000094216.3 | ENSDART00000148349 | ENSDART00000148349.3 | si:ch1073-186o8.3 | si:ch1073-186o8.3 [Source:ZFIN;Acc:ZDB-GENE-131126-56] | ENSDARP00000121095 | ENSDARP00000121095.2 |
| OG0000032 | ENSDARG00000094484 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000094484.4 | ENSDART00000158001 | ENSDART00000158001.2 | si:ch211-162i8.4 | si:ch211-162i8.4 [Source:ZFIN;Acc:ZDB-GENE-110914-48] | ENSDARP00000130404 | ENSDARP00000130404.2 |
| OG0000032 | ENSDARG00000094484 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000094484.4 | ENSDART00000150444 | ENSDART00000150444.2 | si:ch211-162i8.4 | si:ch211-162i8.4 [Source:ZFIN;Acc:ZDB-GENE-110914-48] | ENSDARP00000125361 | ENSDARP00000125361.1 |
| OG0000032 | ENSDARG00000096026 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000096026.4 | ENSDART00000150576 | ENSDART00000150576.2 | si:dkey-4e4.1 | si:dkey-4e4.1 [Source:ZFIN;Acc:ZDB-GENE-110914-73] | ENSDARP00000125354 | ENSDARP00000125354.1 |
| OG0000032 | ENSDARG00000096851 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000096851.2 | ENSDART00000156479 | ENSDART00000156479.2 | znf1143 | zinc finger protein 1143 [Source:ZFIN;Acc:ZDB-GENE-131125-17] | ENSDARP00000129022 | ENSDARP00000129022.1 |
| OG0000032 | ENSDARG00000097501 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000097501.3 | ENSDART00000156177 | ENSDART00000156177.2 | si:dkey-111k8.3 | si:dkey-111k8.3 [Source:ZFIN;Acc:ZDB-GENE-131119-82] | ENSDARP00000127482 | ENSDARP00000127482.1 |
| OG0000032 | ENSDARG00000099070 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000099070.2 | ENSDART00000160249 | ENSDART00000160249.2 | FP074867.1 | NA | ENSDARP00000134342 | ENSDARP00000134342.1 |
| OG0000032 | ENSDARG00000100568 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000100568.2 | ENSDART00000136092 | ENSDART00000136092.3 | si:ch211-209j12.3 | si:ch211-209j12.3 [Source:ZFIN;Acc:ZDB-GENE-120709-21] | ENSDARP00000118601 | ENSDARP00000118601.2 |
| OG0000032 | ENSDARG00000100673 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000100673.2 | ENSDART00000161653 | ENSDART00000161653.2 | znf974 | zinc finger protein 974 [Source:ZFIN;Acc:ZDB-GENE-131119-54] | ENSDARP00000138259 | ENSDARP00000138259.2 |
| OG0000032 | ENSDARG00000102062 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000102062.2 | ENSDART00000129627 | ENSDART00000129627.3 | si:dkeyp-82h4.3 | si:dkeyp-82h4.3 [Source:ZFIN;Acc:ZDB-GENE-120709-17] | ENSDARP00000107044 | ENSDARP00000107044.2 |
| OG0000032 | ENSDARG00000102062 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000102062.2 | ENSDART00000163401 | ENSDART00000163401.2 | si:dkeyp-82h4.3 | si:dkeyp-82h4.3 [Source:ZFIN;Acc:ZDB-GENE-120709-17] | ENSDARP00000132254 | ENSDARP00000132254.2 |
| OG0000032 | ENSDARG00000103341 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000103341.2 | ENSDART00000102030 | ENSDART00000102030.4 | si:ch211-110e21.4 | si:ch211-110e21.4 [Source:ZFIN;Acc:ZDB-GENE-131126-43] | ENSDARP00000092806 | ENSDARP00000092806.4 |
| OG0000032 | ENSDARG00000103777 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000103777.2 | ENSDART00000162970 | ENSDART00000162970.2 | znf1001 | zinc finger protein 1001 [Source:ZFIN;Acc:ZDB-GENE-080213-7] | ENSDARP00000140763 | ENSDARP00000140763.1 |
| OG0000032 | ENSDARG00000104822 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000104822.2 | ENSDART00000145324 | ENSDART00000145324.3 | znf1131 | zinc finger protein 1131 [Source:ZFIN;Acc:ZDB-GENE-110914-31] | ENSDARP00000118663 | ENSDARP00000118663.2 |
| OG0000032 | ENSDARG00000105075 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000105075.2 | ENSDART00000162077 | ENSDART00000162077.2 | BX324216.2 | gastrula zinc finger protein XlCGF57.1-like [Source:NCBI gene;Acc:108181150] | ENSDARP00000137891 | ENSDARP00000137891.2 |
| OG0000032 | ENSDARG00000105690 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000105690.2 | ENSDART00000174091 | ENSDART00000174091.2 | zgc:194215 | zgc:194215 [Source:ZFIN;Acc:ZDB-GENE-080723-25] | ENSDARP00000143053 | ENSDARP00000143053.1 |
| OG0000032 | ENSDARG00000106808 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000106808.2 | ENSDART00000178351 | ENSDART00000178351.2 | CU856622.1 | NA | ENSDARP00000143754 | ENSDARP00000143754.2 |
| OG0000032 | ENSDARG00000107106 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000107106.2 | ENSDART00000175151 | ENSDART00000175151.2 | CABZ01034089.1 | NA | ENSDARP00000143527 | ENSDARP00000143527.2 |
| OG0000032 | ENSDARG00000112606 | Danio_rerio | Cypriniformes | Teleostei | ENSDARG00000112606.1 | ENSDART00000166593 | ENSDART00000166593.2 | BX248128.4 | NA | ENSDARP00000133072 | ENSDARP00000133072.2 |
GO enrichment analysis of over 1500 gene orthogroups
I annotated and functionally characterised the excluded orthogroups, and found that they were mostly associated with immune processes and ion transport, whereas the gene sets we used in our analysis were involved in many diverse processes. Although processes related to ion transport and immunity are important, our sample encompassed a diverse array of processes, and provided a powerful window into teleost evolution.
library(GOstats)
library(GO.db)
library(GSEABase)
library(AnnotationDbi)
library(RSQLite)
library(tidyverse)
annot<-read_tsv("./Datasets/DatasetS0_csv_files/annot.tsv", col_names = c("GO_id","evidence","gene")) #annot.tsv was obstained from DeepGO
annot<-annot %>% mutate(gene = str_remove(annot$gene,"..$"))
annot<-annot %>% mutate(gene = str_remove(annot$gene,"\\."))
goFrame<-GOFrame(as.data.frame(annot, organism = "fish"))
goAllFrame<-GOAllFrame(goFrame)
gsc<-GeneSetCollection(goAllFrame,setType = GOCollection())
universe<-annot$gene
GO_enrich<-function(.data){
up<-GSEAGOHyperGParams(name = "GO enrich",
geneSetCollection = gsc,
geneIds = .data,
universeGeneIds = universe,
ontology = "BP", #options: BP, MF, CC
pvalueCutoff = 0.05,
conditional = F,
testDirection = "over")
Over_up<- hyperGTest(up)
Over_up.pv<-pvalues(Over_up)
pv.fdr<-p.adjust(Over_up.pv,"fdr")
summary(Over_up) %>% as_tibble() %>% mutate(FDR = pv.fdr[1:nrow(summary(Over_up) %>% as_tibble())]) %>% dplyr::select(GOBPID,FDR,Term,Size) %>% filter(FDR<=0.05) %>% return()
}
orth_list<-readRDS("./RDS/large_fish_tree_all_orders.rds")
orth_list<-orth_list %>% mutate(orths = str_replace_all(orths, "\\.\\d+", ""))
GO_enrich(orth_list %>% filter(Orthogroup %in% orth_list_over_1.5k$Orthogroup) %>% pull(orths)) %>% saveRDS("./RDS/more1.5kgenes_orths_GO_BP.rds")## GO plot
library(ggforce)
go_plot<-function(.data,name){
GOenrich<-.data %>% arrange(desc(FDR)) %>% head(118)
ggplot(GOenrich,aes(x = 1-log10(FDR),
y = as.factor(Term),
size = log10(Size)))+
geom_point(color = "darkgreen")+
ylab("Biological Process")+
theme_light()->go_plot
#ggplot2::ggsave(paste("./Figures/",name,"_GO_enrich.png"),go_plot,width = 5,height = 10, units = "in",scale = 1.5,limitsize
#= F,device = "png")
return(go_plot)
}
go_plot(readRDS("./RDS/more1.5kgenes_orths_GO_BP.rds"))knitr::include_graphics("./Figures/FigS1_over1k_GO_enrichment.png")
Fish phylogeny
I obtained a rooted phylogenetic tree from timetree.org
library(phytools)
library(ggtree)
library(RColorBrewer)
tree<-read.newick("./Datasets/DatasetS0_csv_files/Fish_tree.nwk")
fish_data<-read.csv("./Datasets/DatasetS0_csv_files/Fish_data.csv")
p<-ggtree(tree,branch.length = "none")#,layout = "circular")
p$data %>% filter(isTip==F)->not_tips
p$data %>% filter(isTip==T)->tips
left_join(tips,(fish_data %>% dplyr::rename(label=Species)),by = "label")->tips
not_tips %>% mutate(Order = "NA") %>% mutate(Family = "NA")->not_tips
rbind(tips, not_tips)->p$data
p <- p + geom_tree()+geom_tiplab(size=3)+hexpand(.95)p #Circular species tree in Fig 1
Session info
sessionInfo()## R version 4.4.0 (2024-04-24)
## Platform: aarch64-apple-darwin20
## Running under: macOS Sonoma 14.4.1
##
## Matrix products: default
## BLAS: /Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/lib/libRblas.0.dylib
## LAPACK: /Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/lib/libRlapack.dylib; LAPACK version 3.12.0
##
## locale:
## [1] en_US.UTF-8/en_US.UTF-8/en_US.UTF-8/C/en_US.UTF-8/en_US.UTF-8
##
## time zone: Europe/Zurich
## tzcode source: internal
##
## attached base packages:
## [1] stats graphics grDevices utils datasets methods base
##
## other attached packages:
## [1] RColorBrewer_1.1-3 ggtree_3.12.0 phytools_2.3-0 maps_3.4.2
## [5] ape_5.8 kableExtra_1.4.0 lubridate_1.9.3 forcats_1.0.0
## [9] stringr_1.5.1 dplyr_1.1.4 purrr_1.0.2 readr_2.1.5
## [13] tidyr_1.3.1 tibble_3.2.1 ggplot2_3.5.1 tidyverse_2.0.0
##
## loaded via a namespace (and not attached):
## [1] tidyselect_1.2.1 viridisLite_0.4.2 farver_2.1.2
## [4] optimParallel_1.0-2 fastmap_1.2.0 lazyeval_0.2.2
## [7] combinat_0.0-8 digest_0.6.37 timechange_0.3.0
## [10] lifecycle_1.0.4 tidytree_0.4.6 magrittr_2.0.3
## [13] compiler_4.4.0 rlang_1.1.4 sass_0.4.9
## [16] tools_4.4.0 igraph_2.0.3 utf8_1.2.4
## [19] yaml_2.3.10 knitr_1.48 phangorn_2.11.1
## [22] clusterGeneration_1.3.8 labeling_0.4.3 bit_4.0.5
## [25] mnormt_2.1.1 scatterplot3d_0.3-44 xml2_1.3.6
## [28] aplot_0.2.3 expm_1.0-0 withr_3.0.1
## [31] numDeriv_2016.8-1.1 grid_4.4.0 fansi_1.0.6
## [34] colorspace_2.1-1 scales_1.3.0 iterators_1.0.14
## [37] MASS_7.3-61 cli_3.6.3 rmarkdown_2.28
## [40] crayon_1.5.3 treeio_1.28.0 generics_0.1.3
## [43] rstudioapi_0.16.0 tzdb_0.4.0 cachem_1.1.0
## [46] parallel_4.4.0 ggplotify_0.1.2 yulab.utils_0.1.7
## [49] vctrs_0.6.5 Matrix_1.7-0 jsonlite_1.8.8
## [52] patchwork_1.2.0 gridGraphics_0.5-1 hms_1.1.3
## [55] bit64_4.0.5 systemfonts_1.1.0 foreach_1.5.2
## [58] jquerylib_0.1.4 glue_1.7.0 codetools_0.2-20
## [61] DEoptim_2.2-8 stringi_1.8.4 gtable_0.3.5
## [64] quadprog_1.5-8 munsell_0.5.1 pillar_1.9.0
## [67] htmltools_0.5.8.1 R6_2.5.1 doParallel_1.0.17
## [70] vroom_1.6.5 evaluate_0.24.0 lattice_0.22-6
## [73] highr_0.11 ggfun_0.1.6 bslib_0.8.0
## [76] Rcpp_1.0.13 fastmatch_1.1-4 svglite_2.1.3
## [79] coda_0.19-4.1 nlme_3.1-166 xfun_0.47
## [82] fs_1.6.4 pkgconfig_2.0.3Downloading Bgee data
This section deals with connecting to the Bgee server and downloading the data.
Functions to download Bgee data
Here are are the functions I used to download and process the data from Bgee. Accesses the Bgee data set and download data
# Function to download RNA-seq data from Bgee
bgee_download <- function(species, samples) {
print(species)
print(samples)
bgee <- BgeeDB::Bgee$new(species=species, dataType="rna_seq")
bgee.data <- BgeeDB::getData(bgee, sampleId=samples)
bgee.data <- bind_rows(bgee.data)
bgee.data[, c("Anatomical.entity.name", "Stage.name", "Strain")] <-
apply(bgee.data[, c("Anatomical.entity.name", "Stage.name", "Strain")], 2,
function(i) { gsub('\"', "", i) })
return(bgee.data)
}
species.list <- listBgeeSpecies(release="15.0")
# Did this manually to identify the fishes
# NCBI taxonomy ID
species.fish <- c("Lepisosteus_oculatus"="7918",
"Anguilla_anguilla"="7936",
"Danio_rerio"="7955",
"Astyanax_mexicanus"="7994",
"Esox_lucius"="8010",
"Salmo_salar"="8030",
"Gadus_morhua"="8049",
"Poecilia_reticulata"="8081",
"Oryzias_latipes"="8090",
"Astatotilapia_calliptera"="8154",
"Neolamprologus_brichardi"="32507",
"Scophthalmus_maximus"="52904",
"Gasterosteus_aculeatus"="69293",
"Nothobranchius_furzeri"="105023")
#Use the code below to retrieve annotations of samples for each species.
annotation <-
lapply(species.fish, function(id) {
getAnnotation(Bgee$new(
species=id, dataType="rna_seq"))
} )
names(annotation) <- names(species.fish)
#for (s in names(species.fish)) {
# annotation[[s]]$sample.annotation$Anatomical.entity.name <-
# gsub(" ","_", annotation[[s]]$sample.annotation$Anatomical.entity.name)
#}
# Separate sample and experiment annotations
annotation.sample <- vector(mode="list",length=length(species.fish))
names(annotation.sample) <- names(species.fish)
annotation.exp <- vector(mode="list",length=length(species.fish))
names(annotation.exp) <- names(species.fish)
for (s in names(species.fish)) {
annotation.sample[[s]] <- annotation[[s]][["sample.annotation"]]
annotation.exp[[s]] <- annotation[[s]][["experiment.annotation"]]
}
annotation.sample <- annotation.sample %>%
dplyr::bind_rows(.id="Species")
annotation.exp <- annotation.exp %>%
dplyr::bind_rows(.id="Species")
# Download RNA-seq data per species
rna.seq <-
lapply(setNames(names(species.fish), names(species.fish)), function(s) {
bgee_download(species=species.fish[[s]],
samples=annotation.sample$Library.ID[annotation.sample$Species==s])
})
#for (s in names(species)) {
# rna.seq[[s]]$Anatomical.entity.name <-
# gsub(" ","_", rna.seq[[s]]$Anatomical.entity.name)
#}
annotation.sample %>% saveRDS("./RDS/Bgee_fish_annotation.samples_more_fish.rds")
annotation.exp %>% saveRDS("./RDS/Bgee_fish_annotation.exp_more_fish.rds")
rna.seq %>% saveRDS("./RDS/Bgee_fish_rna.seq_more_fish.rds")Functions to process Bgee data
After downloading the Bgee data I use the following function to make specific data frames, perform batch correction, and compute tissue-specificity.
#Get number of tissues
no_of_tissue_samples_in_each_fish<-function(x){
bgee_dat %>% dplyr::filter(Anatomical.entity.name == x) %>% dplyr::group_by(Species) %>% dplyr::summarise(Libraries = length(unique(Library.ID)))
}
#Make the expression matrix data frame
make_exp_data_frames_Read.count<-function(.data, ...){
.data %>% filter(Library.ID %in% bgee_dat$Library.ID) %>%
dplyr::select(Gene.ID, Read.count, Library.ID) %>%
pivot_wider(names_from = Library.ID,values_from = Read.count)
}
TMM_norm_only<-function(.data){
library(edgeR)
#TMM norm
#design matix
design_matrix<-.data %>% filter(Library.ID %in% bgee_dat$Library.ID) %>%
dplyr::select(Experiment.ID,Library.ID,Anatomical.entity.name) %>% distinct()
dge<-edgeR::DGEList(.data %>% make_exp_data_frames_Read.count() %>% column_to_rownames("Gene.ID"), group = factor(design_matrix$Anatomical.entity.name))
keep<-filterByExpr(cpm(dge), min.count = 1, group = factor(design_matrix$Anatomical.entity.name))
dge<-dge[keep, ,keep.lib.sizes =T]
dge<-calcNormFactors(dge,method = "TMM")
dge<-edgeR::cpm(dge, normalized.lib.sizes = T, log = F)
return(dge)
}
#Building the tau data frame
build_tau_data_frame<-function(.data, var) {
left_join(.data %>% pivot_longer(!Gene.ID,names_to = "Library.ID",values_to = "counts"),
bgee_dat %>% filter(Species == {{ var }}) %>%
dplyr::select(Library.ID,Anatomical.entity.name),by = "Library.ID") %>%
group_by(Gene.ID,Anatomical.entity.name) %>%
summarise(counts = mean(counts)) %>%
spread(Anatomical.entity.name,counts)
}
#TMM with combat batch correction
#NOT USED IN THIS VERSION
combat<-function(.data){
library(edgeR)
library(DESeq2)
design_matrix<-rna.dat$Lepisosteus_oculatus %>% filter(Library.ID %in% bgee_dat$Library.ID) %>%
dplyr::select(Experiment.ID,Library.ID,Anatomical.entity.name) %>% distinct()
dge<-edgeR::DGEList(rna.dat$Lepisosteus_oculatus %>% make_exp_data_frames_Read.count() %>% column_to_rownames("Gene.ID"), group = factor(design_matrix$Anatomical.entity.name))
keep<-edgeR::filterByExpr(cpm(dge), min.count = 1, group = factor(design_matrix$Experiment.ID))
dge<-dge[keep, ,keep.lib.sizes =T]
dge<-calcNormFactors(dge,method = "TMM")
dge<-edgeR::cpm(dge, normalized.lib.sizes = T, log = F)
dge <- sva::ComBat_seq(dge, batch=design_matrix$Experiment.ID, group=NULL)
log10(dge+1) %>% as.matrix() %>%
preprocessCore::normalize.quantiles(as.matrix(.data),keep.names = T)->m
colData<-DataFrame(experiment = design_matrix$Experiment.ID,
tissue = design_matrix$Anatomical.entity.name)
se<-SummarizedExperiment::SummarizedExperiment(m - rowMeans(m),colData = colData)
pcaDat<-plotPCA(DESeqTransform(se),intgroup = c("tissue","experiment"), ntop = 10000, returnData=T)
percentVar_all<-round(100 * attr(pcaDat,"percentVar"))
plot<-ggplot(pcaDat,aes(PC1,PC2,color = experiment,label = tissue))+
geom_text()+
theme_light()+
xlab(paste0("PC1 (",percentVar_all[1],"%)")) +
ylab(paste0("PC2 (",percentVar_all[2],"%)"))
return(dge) #use to make data frame
#return(plot) #use to see PCA after combat
}
#TMM nnormalisation plus batch correction for different experiment and visualising the pca
norm_pca<-function(.data){
library(edgeR)
library(DESeq2)
design_matrix<-.data %>% filter(Library.ID %in% bgee_dat$Library.ID) %>%
dplyr::select(Experiment.ID,Library.ID,Anatomical.entity.name) %>% distinct()
dge<-edgeR::DGEList(.data %>% make_exp_data_frames_Read.count() %>% column_to_rownames("Gene.ID"), group = factor(design_matrix$Anatomical.entity.name))
keep<-filterByExpr(cpm(dge), min.count = 1, group = factor(design_matrix$Experiment.ID))
dge<-dge[keep, ,keep.lib.sizes =T]
dge<-calcNormFactors(dge,method = "TMM")
dge<-edgeR::cpm(dge, normalized.lib.sizes = T, log = F)
log10(dge+1) %>%
as.matrix() %>%
preprocessCore::normalize.quantiles(as.matrix(.data),keep.names = T)->m
colData<-DataFrame(experiment = design_matrix$Experiment.ID,
tissue = design_matrix$Anatomical.entity.name)
se<-SummarizedExperiment::SummarizedExperiment(m - rowMeans(m),colData = colData)
pcaDat<-plotPCA(DESeqTransform(se),intgroup = c("tissue","experiment"), ntop = 10000, returnData=T)
percentVar_all<-round(100 * attr(pcaDat,"percentVar"))
plot<-ggplot(pcaDat,aes(PC1,PC2,color = experiment,label = tissue))+
geom_text()+
theme_light()+
xlab(paste0("PC1 (",percentVar_all[1],"%)")) +
ylab(paste0("PC2 (",percentVar_all[2],"%)"))
return(plot)
}
#Compute tau
compute_tau<-function(.data,tissue){
# tau equation
get_tau <- function(.data) {
# Takes mean expression matrix
tau <- apply(.data, MARGIN=1, function(row) {
max <- max(row)
exp.norm <- row/max
numerator <- sum(1-exp.norm)
conditions <- ncol(.data)
numerator/(conditions-1)
})
names(tau) <- rownames(.data)
return(tau)
}
(.data %>% column_to_rownames("Gene.ID")) %>%
get_tau() %>% as_tibble(rownames = NA) %>%
rownames_to_column("Gene.ID") %>%
dplyr::rename(tau=value) %>% return()->tau_estimate
#running on input data frame to create final output with left join to original data frame. Prepares
#final output of tau >=0.8 (strict threshold) and gene whose expression is
#higher than the sum of all other tissues
left_join(tau_estimate,.data,by="Gene.ID") %>%
filter(tau >= 0.8) %>%
dplyr::mutate(m = rowSums(across(!c(Gene.ID,tau,tissue)))) %>%
dplyr::filter(.data[[tissue]] > m) %>%
dplyr::select(!m) %>%
return()
}Load the data
Here I load all the data downloaded from Bgee
#read required data
#select the following stages
stages = c("life cycle", "late adult stage","post-juvenile","prime adult stage", "sexually immature stage", "post-juvenile")
bgee_dat<-readRDS("./RDS/Bgee_fish_annotation.samples_more_fish.rds") %>% filter(Stage.name %in% stages)
#read all Bgee dat for above species, tissues, and stages
rna.dat<-readRDS("./RDS/Bgee_fish_rna.seq_more_fish.rds")Get tissue distribution data
I see that data for caudal fin and swim bladder are only in two species, and intestine is only in four species. Therefore I will not use them for analysis.
tissue_name<-c("brain","camera-type eye","caudal fin","head kidney","heart","intestine","liver","mesonephros","muscle tissue","ovary","pharyngeal gill","spleen","swim bladder","testis","zone of skin")
purrr::map(tissue_name,no_of_tissue_samples_in_each_fish)->d
names(d)<-tissue_name
d## $brain
## # A tibble: 13 × 2
## Species Libraries
## <chr> <int>
## 1 Anguilla_anguilla 1
## 2 Astatotilapia_calliptera 2
## 3 Astyanax_mexicanus 7
## 4 Danio_rerio 19
## 5 Esox_lucius 2
## 6 Gadus_morhua 1
## 7 Gasterosteus_aculeatus 1
## 8 Lepisosteus_oculatus 2
## 9 Neolamprologus_brichardi 1
## 10 Nothobranchius_furzeri 25
## 11 Oryzias_latipes 45
## 12 Salmo_salar 1
## 13 Scophthalmus_maximus 6
##
## $`camera-type eye`
## # A tibble: 7 × 2
## Species Libraries
## <chr> <int>
## 1 Astatotilapia_calliptera 1
## 2 Astyanax_mexicanus 1
## 3 Esox_lucius 1
## 4 Gasterosteus_aculeatus 1
## 5 Lepisosteus_oculatus 1
## 6 Neolamprologus_brichardi 1
## 7 Salmo_salar 1
##
## $`caudal fin`
## # A tibble: 2 × 2
## Species Libraries
## <chr> <int>
## 1 Nothobranchius_furzeri 90
## 2 Poecilia_reticulata 40
##
## $`head kidney`
## # A tibble: 7 × 2
## Species Libraries
## <chr> <int>
## 1 Astyanax_mexicanus 2
## 2 Danio_rerio 4
## 3 Esox_lucius 2
## 4 Gadus_morhua 1
## 5 Gasterosteus_aculeatus 82
## 6 Salmo_salar 1
## 7 Scophthalmus_maximus 8
##
## $heart
## # A tibble: 10 × 2
## Species Libraries
## <chr> <int>
## 1 Anguilla_anguilla 1
## 2 Astyanax_mexicanus 3
## 3 Danio_rerio 11
## 4 Esox_lucius 2
## 5 Gadus_morhua 1
## 6 Gasterosteus_aculeatus 2
## 7 Lepisosteus_oculatus 2
## 8 Neolamprologus_brichardi 1
## 9 Oryzias_latipes 45
## 10 Salmo_salar 1
##
## $intestine
## # A tibble: 5 × 2
## Species Libraries
## <chr> <int>
## 1 Anguilla_anguilla 1
## 2 Astyanax_mexicanus 2
## 3 Danio_rerio 1
## 4 Lepisosteus_oculatus 1
## 5 Oryzias_latipes 5
##
## $liver
## # A tibble: 13 × 2
## Species Libraries
## <chr> <int>
## 1 Anguilla_anguilla 1
## 2 Astatotilapia_calliptera 13
## 3 Astyanax_mexicanus 3
## 4 Danio_rerio 11
## 5 Esox_lucius 2
## 6 Gadus_morhua 1
## 7 Gasterosteus_aculeatus 1
## 8 Lepisosteus_oculatus 2
## 9 Neolamprologus_brichardi 12
## 10 Nothobranchius_furzeri 25
## 11 Oryzias_latipes 71
## 12 Salmo_salar 1
## 13 Scophthalmus_maximus 1
##
## $mesonephros
## # A tibble: 9 × 2
## Species Libraries
## <chr> <int>
## 1 Anguilla_anguilla 1
## 2 Astyanax_mexicanus 1
## 3 Danio_rerio 1
## 4 Esox_lucius 1
## 5 Gasterosteus_aculeatus 13
## 6 Lepisosteus_oculatus 2
## 7 Neolamprologus_brichardi 1
## 8 Oryzias_latipes 1
## 9 Salmo_salar 1
##
## $`muscle tissue`
## # A tibble: 12 × 2
## Species Libraries
## <chr> <int>
## 1 Anguilla_anguilla 1
## 2 Astatotilapia_calliptera 13
## 3 Astyanax_mexicanus 3
## 4 Danio_rerio 4
## 5 Esox_lucius 2
## 6 Gadus_morhua 1
## 7 Gasterosteus_aculeatus 1
## 8 Lepisosteus_oculatus 2
## 9 Neolamprologus_brichardi 12
## 10 Oryzias_latipes 45
## 11 Salmo_salar 1
## 12 Scophthalmus_maximus 7
##
## $ovary
## # A tibble: 9 × 2
## Species Libraries
## <chr> <int>
## 1 Anguilla_anguilla 1
## 2 Astatotilapia_calliptera 2
## 3 Astyanax_mexicanus 2
## 4 Danio_rerio 1
## 5 Esox_lucius 1
## 6 Gadus_morhua 1
## 7 Lepisosteus_oculatus 1
## 8 Oryzias_latipes 2
## 9 Salmo_salar 1
##
## $`pharyngeal gill`
## # A tibble: 10 × 2
## Species Libraries
## <chr> <int>
## 1 Anguilla_anguilla 1
## 2 Astyanax_mexicanus 2
## 3 Danio_rerio 1
## 4 Esox_lucius 2
## 5 Gadus_morhua 1
## 6 Gasterosteus_aculeatus 1
## 7 Lepisosteus_oculatus 1
## 8 Oryzias_latipes 1
## 9 Salmo_salar 1
## 10 Scophthalmus_maximus 3
##
## $spleen
## # A tibble: 6 × 2
## Species Libraries
## <chr> <int>
## 1 Astatotilapia_calliptera 1
## 2 Danio_rerio 1
## 3 Esox_lucius 1
## 4 Gasterosteus_aculeatus 72
## 5 Salmo_salar 1
## 6 Scophthalmus_maximus 9
##
## $`swim bladder`
## # A tibble: 2 × 2
## Species Libraries
## <chr> <int>
## 1 Anguilla_anguilla 13
## 2 Danio_rerio 3
##
## $testis
## # A tibble: 11 × 2
## Species Libraries
## <chr> <int>
## 1 Anguilla_anguilla 1
## 2 Astatotilapia_calliptera 2
## 3 Astyanax_mexicanus 2
## 4 Danio_rerio 1
## 5 Esox_lucius 2
## 6 Gadus_morhua 1
## 7 Gasterosteus_aculeatus 2
## 8 Lepisosteus_oculatus 2
## 9 Neolamprologus_brichardi 1
## 10 Oryzias_latipes 3
## 11 Salmo_salar 1
##
## $`zone of skin`
## # A tibble: 8 × 2
## Species Libraries
## <chr> <int>
## 1 Astatotilapia_calliptera 1
## 2 Astyanax_mexicanus 1
## 3 Danio_rerio 33
## 4 Gasterosteus_aculeatus 1
## 5 Lepisosteus_oculatus 1
## 6 Neolamprologus_brichardi 1
## 7 Nothobranchius_furzeri 25
## 8 Salmo_salar 1Normalisation PCA
Since the data in bgee sometimes includes tissue expression data from multiple experiments, I need to check the data to determine whether it needs any specific batch correction. The effect of different experiments in only prevalent in Lepisosteus_oculatus therefore I didn’t include in out analysis. Tissues of other species cluster generally together irrespective of experiment.
purrr::map(rna.dat,norm_pca)## $Lepisosteus_oculatus
##
## $Anguilla_anguilla
##
## $Danio_rerio
##
## $Astyanax_mexicanus
##
## $Esox_lucius
##
## $Salmo_salar
##
## $Gadus_morhua
##
## $Poecilia_reticulata
##
## $Oryzias_latipes
##
## $Astatotilapia_calliptera
##
## $Neolamprologus_brichardi
##
## $Scophthalmus_maximus
##
## $Gasterosteus_aculeatus
##
## $Nothobranchius_furzeri
Counts normalisation
I run the TMM normalisation function and build the data frame that will be the input to compute tau.
#build_tau_dataframe
Astatotilapia_calliptera_tau_input<-rna.dat$Astatotilapia_calliptera %>% TMM_norm_only() %>% as_tibble(rownames = NA) %>% rownames_to_column("Gene.ID") %>% build_tau_data_frame(var = "Astatotilapia_calliptera")
Astyanax_mexicanus_tau_input<-rna.dat$Astyanax_mexicanus %>% TMM_norm_only() %>% as_tibble(rownames = NA) %>% rownames_to_column("Gene.ID") %>% build_tau_data_frame(var = "Astyanax_mexicanus")
Danio_rerio_tau_input<-rna.dat$Danio_rerio %>% TMM_norm_only %>% as_tibble(rownames = NA) %>% rownames_to_column("Gene.ID") %>% build_tau_data_frame(var = "Danio_rerio")
Esox_lucius_tau_input<-rna.dat$Esox_lucius %>% TMM_norm_only %>% as_tibble(rownames = NA) %>% rownames_to_column("Gene.ID") %>% build_tau_data_frame(var = "Esox_lucius")
Gasterosteus_aculeatus_tau_input<-rna.dat$Gasterosteus_aculeatus %>% TMM_norm_only() %>% as_tibble(rownames = NA) %>% rownames_to_column("Gene.ID") %>% build_tau_data_frame(var = "Gasterosteus_aculeatus")
Gadus_morhua_tau_input<-rna.dat$Gadus_morhua %>% TMM_norm_only %>% as_tibble(rownames = NA) %>% rownames_to_column("Gene.ID") %>% build_tau_data_frame(var = "Gadus_morhua")
Lepisosteus_oculatus_tau_input<-rna.dat$Lepisosteus_oculatus %>% combat() %>% as_tibble(rownames = NA) %>% rownames_to_column("Gene.ID") %>% build_tau_data_frame(var = "Lepisosteus_oculatus") #Performed combat
Neolamprologus_brichardi_tau_input<-rna.dat$Neolamprologus_brichardi%>% TMM_norm_only() %>% as_tibble(rownames = NA) %>% rownames_to_column("Gene.ID") %>% build_tau_data_frame(var = "Neolamprologus_brichardi")
Nothobranchius_furzeri_tau_input<-rna.dat$Nothobranchius_furzeri %>% TMM_norm_only() %>% as_tibble(rownames = NA) %>% rownames_to_column("Gene.ID") %>% build_tau_data_frame(var = "Nothobranchius_furzeri")
Oryzias_latipes_tau_input<-rna.dat$Oryzias_latipes %>% TMM_norm_only() %>% as_tibble(rownames = NA) %>% rownames_to_column("Gene.ID") %>% build_tau_data_frame(var = "Oryzias_latipes")
Salmo_salar_tau_input<-rna.dat$Salmo_salar %>% TMM_norm_only() %>% as_tibble(rownames = NA) %>% rownames_to_column("Gene.ID") %>% build_tau_data_frame(var = "Salmo_salar")
Scophthalmus_maximus_tau_input<-rna.dat$Scophthalmus_maximus %>% TMM_norm_only() %>% as_tibble(rownames = NA) %>% rownames_to_column("Gene.ID") %>% build_tau_data_frame(var = "Scophthalmus_maximus")
list(Astyanax_mexicanus_tau_input = Astyanax_mexicanus_tau_input,
Astatotilapia_calliptera_tau_input = Astatotilapia_calliptera_tau_input,
Danio_rerio_tau_input = Danio_rerio_tau_input,
Esox_lucius_tau_input = Esox_lucius_tau_input,
Gasterosteus_aculeatus_tau_input = Gasterosteus_aculeatus_tau_input,
Gadus_morhua_tau_input = Gadus_morhua_tau_input,
Lepisosteus_oculatus_tau_input = Lepisosteus_oculatus_tau_input,
Neolamprologus_brichardi_tau_input = Neolamprologus_brichardi_tau_input,
Nothobranchius_furzeri_tau_input = Nothobranchius_furzeri_tau_input,
Oryzias_latipes_tau_input = Oryzias_latipes_tau_input,
Salmo_salar_tau_input = Salmo_salar_tau_input,
Scophthalmus_maximus_tau_input = Scophthalmus_maximus_tau_input) %>% saveRDS("./RDS/Tau_input_dat_TMM_cpm_no_log_no_combat_all_fish.rds")Compute Tau
To estimate tissue specificity I used the tissue-specificity index Tau. The code below calculates tau for each tissue in each sampled species. I classify a gene as tissue-specific if it has a tau estimate above 0.8 and its mean expression level in the target tissue is higher than the sum of its expression in all the other tissues. This ensures we keep only those genes that are tissue-specific and highly expressed in their target tissues.
tau_input<-readRDS("./RDS/Tau_input_dat_TMM_cpm_no_log_no_combat_all_fish.rds")
#remove unwanted and ambiguous tissues (e.g. larva, immature organism etc..)
tau_input$Astatotilapia_calliptera_tau_input %>% dplyr::select(!c(`multicellular organism`))->tau_input$Astatotilapia_calliptera_tau_input
tau_input$Danio_rerio_tau_input %>% dplyr::select(!c(`mature ovarian follicle`))->tau_input$Danio_rerio_tau_input
tau_input$Esox_lucius_tau_input %>% dplyr::select(!`embryo`)->tau_input$Esox_lucius_tau_input
tau_input$Gadus_morhua_tau_input %>% dplyr::select(!c(`embryo`,`sexually immature organism`,`immune organ`))->tau_input$Gadus_morhua_tau_input
tau_input$Gasterosteus_aculeatus_tau_input %>% dplyr::select(!c(`telencephalon`,`diencephalon`))->tau_input$Gasterosteus_aculeatus_tau_input
tau_input$Oryzias_latipes_tau_input %>% dplyr::select(!c(`multicellular organism`,`sexually immature organism`,`adult organism`))->tau_input$Oryzias_latipes_tau_input
tau_input$Salmo_salar_tau_input %>% dplyr::select(!c(semen, `sexually immature organism`))->tau_input$Salmo_salar_tau_input
# Skin
tau_input$Astatotilapia_calliptera_tau_input %>% compute_tau(tissue = "zone of skin")->Astatotilapia_calliptera_tau
tau_input$Astyanax_mexicanus_tau_input %>% compute_tau(tissue = "zone of skin")->Astyanax_mexicanus_tau
tau_input$Danio_rerio_tau_input %>% compute_tau(tissue = "zone of skin")->Danio_rerio_tau
tau_input$Gasterosteus_aculeatus_tau_input %>% compute_tau(tissue = "zone of skin")->Gasterosteus_aculeatus_tau
tau_input$Neolamprologus_brichardi_tau_input %>% compute_tau(tissue = "zone of skin")->Neolamprologus_brichardi_tau
tau_input$Nothobranchius_furzeri_tau_input %>% compute_tau(tissue = "zone of skin")->Nothobranchius_furzeri_tau
tau_input$Salmo_salar_tau_input %>% compute_tau(tissue = "zone of skin")->Salmo_salar_tau
list(Astyanax_mexicanus = Astyanax_mexicanus_tau,
Astatotilapia_calliptera = Astatotilapia_calliptera_tau,
Danio_rerio = Danio_rerio_tau,
Gasterosteus_aculeatus= Gasterosteus_aculeatus_tau,
Neolamprologus_brichardi = Neolamprologus_brichardi_tau,
Nothobranchius_furzeri= Nothobranchius_furzeri_tau,
Salmo_salar = Salmo_salar_tau) %>% saveRDS("./RDS/Tau_0.8_TMM_cpm_no_log_no_combat_skin.rds")
# Brain
tau_input$Astatotilapia_calliptera_tau_input %>% compute_tau(tissue = "brain")->Astatotilapia_calliptera_tau
tau_input$Astyanax_mexicanus_tau_input %>% compute_tau(tissue = "brain")->Astyanax_mexicanus_tau
tau_input$Danio_rerio_tau_input %>% compute_tau(tissue = "brain")->Danio_rerio_tau
tau_input$Esox_lucius_tau_input %>% compute_tau(tissue = "brain")->Esox_lucius_tau
tau_input$Gadus_morhua_tau_input %>% compute_tau(tissue = "brain")->Gadus_morhua_tau
tau_input$Gasterosteus_aculeatus_tau_input %>% compute_tau(tissue = "brain")->Gasterosteus_aculeatus_tau
tau_input$Neolamprologus_brichardi_tau_input %>% compute_tau(tissue = "brain")->Neolamprologus_brichardi_tau
tau_input$Nothobranchius_furzeri_tau_input %>% compute_tau(tissue = "brain")->Nothobranchius_furzeri_tau
tau_input$Oryzias_latipes_tau_input %>% compute_tau(tissue = "brain")->Oryzias_latipes_tau
tau_input$Salmo_salar_tau_input %>% compute_tau(tissue = "brain")->Salmo_salar_tau
tau_input$Scophthalmus_maximus_tau_input %>% compute_tau(tissue = "brain")->Scophthalmus_maximus_tau
list(Astyanax_mexicanus = Astyanax_mexicanus_tau,
Astatotilapia_calliptera = Astatotilapia_calliptera_tau,
Danio_rerio = Danio_rerio_tau,
Esox_lucius = Esox_lucius_tau,
Gadus_morhua = Gadus_morhua_tau,
Gasterosteus_aculeatus= Gasterosteus_aculeatus_tau,
Neolamprologus_brichardi = Neolamprologus_brichardi_tau,
Nothobranchius_furzeri= Nothobranchius_furzeri_tau,
Oryzias_latipes = Oryzias_latipes_tau,
Salmo_salar = Salmo_salar_tau,
Scophthalmus_maximus = Scophthalmus_maximus_tau) %>% saveRDS("./RDS/Tau_0.8_TMM_cpm_no_log_no_combat_brain.rds")
# Eye
tau_input$Astatotilapia_calliptera_tau_input %>% compute_tau(tissue = "camera-type eye")->Astatotilapia_calliptera_tau
tau_input$Astyanax_mexicanus_tau_input %>% compute_tau(tissue = "camera-type eye")->Astyanax_mexicanus_tau
tau_input$Esox_lucius_tau_input %>% compute_tau(tissue = "camera-type eye")->Esox_lucius_tau
tau_input$Gasterosteus_aculeatus_tau_input %>% compute_tau(tissue = "camera-type eye")->Gasterosteus_aculeatus_tau
tau_input$Neolamprologus_brichardi_tau_input %>% compute_tau(tissue = "camera-type eye")->Neolamprologus_brichardi_tau
tau_input$Salmo_salar_tau_input %>% compute_tau(tissue = "camera-type eye")->Salmo_salar_tau
list(Astyanax_mexicanus = Astyanax_mexicanus_tau,
Astatotilapia_calliptera = Astatotilapia_calliptera_tau,
Esox_lucius = Esox_lucius_tau,
Gasterosteus_aculeatus= Gasterosteus_aculeatus_tau,
Neolamprologus_brichardi = Neolamprologus_brichardi_tau,
Salmo_salar = Salmo_salar_tau) %>%
saveRDS("./RDS/Tau_0.8_TMM_cpm_no_log_no_combat_eye.rds")
# Heart
tau_input$Astyanax_mexicanus_tau_input %>% compute_tau(tissue = "heart")->Astyanax_mexicanus_tau
tau_input$Danio_rerio_tau_input %>% compute_tau(tissue = "heart")->Danio_rerio_tau
tau_input$Esox_lucius_tau_input %>% compute_tau(tissue = "heart")->Esox_lucius_tau
tau_input$Gadus_morhua_tau_input %>% compute_tau(tissue = "heart")->Gadus_morhua_tau
tau_input$Gasterosteus_aculeatus_tau_input %>% compute_tau(tissue = "heart")->Gasterosteus_aculeatus_tau
tau_input$Neolamprologus_brichardi_tau_input %>% compute_tau(tissue = "heart")->Neolamprologus_brichardi_tau
tau_input$Oryzias_latipes_tau_input %>% compute_tau(tissue = "heart")->Oryzias_latipes_tau
tau_input$Salmo_salar_tau_input %>% compute_tau(tissue = "heart")->Salmo_salar_tau
list(Astyanax_mexicanus = Astyanax_mexicanus_tau,
Danio_rerio = Danio_rerio_tau,
Esox_lucius = Esox_lucius_tau,
Gadus_morhua = Gadus_morhua_tau,
Gasterosteus_aculeatus= Gasterosteus_aculeatus_tau,
Neolamprologus_brichardi = Neolamprologus_brichardi_tau,
Oryzias_latipes = Oryzias_latipes_tau,
Salmo_salar = Salmo_salar_tau) %>% saveRDS("./RDS/Tau_0.8_TMM_cpm_no_log_no_combat_heart.rds")
# Liver
tau_input$Astatotilapia_calliptera_tau_input %>% compute_tau(tissue = "liver")->Astatotilapia_calliptera_tau
tau_input$Astyanax_mexicanus_tau_input %>% compute_tau(tissue = "liver")->Astyanax_mexicanus_tau
tau_input$Danio_rerio_tau_input %>% compute_tau(tissue = "liver")->Danio_rerio_tau
tau_input$Esox_lucius_tau_input %>% compute_tau(tissue = "liver")->Esox_lucius_tau
tau_input$Gadus_morhua_tau_input %>% compute_tau(tissue = "liver")->Gadus_morhua_tau
tau_input$Gasterosteus_aculeatus_tau_input %>% compute_tau(tissue = "liver")->Gasterosteus_aculeatus_tau
tau_input$Neolamprologus_brichardi_tau_input %>% compute_tau(tissue = "liver")->Neolamprologus_brichardi_tau
tau_input$Nothobranchius_furzeri_tau_input %>% compute_tau(tissue = "liver")->Nothobranchius_furzeri_tau
tau_input$Oryzias_latipes_tau_input %>% compute_tau(tissue = "liver")->Oryzias_latipes_tau
tau_input$Salmo_salar_tau_input %>% compute_tau(tissue = "liver")->Salmo_salar_tau
tau_input$Scophthalmus_maximus_tau_input %>% compute_tau(tissue = "liver")->Scophthalmus_maximus_tau
list(Astyanax_mexicanus = Astyanax_mexicanus_tau,
Astatotilapia_calliptera = Astatotilapia_calliptera_tau,
Danio_rerio = Danio_rerio_tau,
Esox_lucius = Esox_lucius_tau,
Gadus_morhua = Gadus_morhua_tau,
Gasterosteus_aculeatus= Gasterosteus_aculeatus_tau,
Neolamprologus_brichardi = Neolamprologus_brichardi_tau,
Nothobranchius_furzeri= Nothobranchius_furzeri_tau,
Oryzias_latipes = Oryzias_latipes_tau,
Salmo_salar = Salmo_salar_tau,
Scophthalmus_maximus = Scophthalmus_maximus_tau) %>% saveRDS("./RDS/Tau_0.8_TMM_cpm_no_log_no_combat_liver.rds")
# Muscle tissue
tau_input$Astatotilapia_calliptera_tau_input %>% compute_tau(tissue = "muscle tissue")->Astatotilapia_calliptera_tau
tau_input$Astyanax_mexicanus_tau_input %>% compute_tau(tissue = "muscle tissue")->Astyanax_mexicanus_tau
tau_input$Danio_rerio_tau_input %>% compute_tau(tissue = "muscle tissue")->Danio_rerio_tau
tau_input$Esox_lucius_tau_input %>% compute_tau(tissue = "muscle tissue")->Esox_lucius_tau
tau_input$Gadus_morhua_tau_input %>% compute_tau(tissue = "muscle tissue")->Gadus_morhua_tau
tau_input$Gasterosteus_aculeatus_tau_input %>% compute_tau(tissue = "muscle tissue")->Gasterosteus_aculeatus_tau
tau_input$Neolamprologus_brichardi_tau_input %>% compute_tau(tissue = "skeletal muscle tissue")->Neolamprologus_brichardi_tau
tau_input$Oryzias_latipes_tau_input %>% compute_tau(tissue = "muscle tissue")->Oryzias_latipes_tau
tau_input$Salmo_salar_tau_input %>% compute_tau(tissue = "muscle tissue")->Salmo_salar_tau
tau_input$Scophthalmus_maximus_tau_input %>% compute_tau(tissue = "muscle tissue")->Scophthalmus_maximus_tau
list(Astyanax_mexicanus = Astyanax_mexicanus_tau,
Astatotilapia_calliptera = Astatotilapia_calliptera_tau,
Danio_rerio = Danio_rerio_tau,
Esox_lucius = Esox_lucius_tau,
Gadus_morhua = Gadus_morhua_tau,
Gasterosteus_aculeatus= Gasterosteus_aculeatus_tau,
Neolamprologus_brichardi = Neolamprologus_brichardi_tau,
Oryzias_latipes = Oryzias_latipes_tau,
Salmo_salar = Salmo_salar_tau,
Scophthalmus_maximus = Scophthalmus_maximus_tau) %>% saveRDS("./RDS/Tau_0.8_TMM_cpm_no_log_no_combat_muscle.rds")
# Ovary
tau_input$Astatotilapia_calliptera_tau_input %>% compute_tau(tissue = "ovary")->Astatotilapia_calliptera_tau
tau_input$Astyanax_mexicanus_tau_input %>% compute_tau(tissue = "ovary")->Astyanax_mexicanus_tau
tau_input$Danio_rerio_tau_input %>% compute_tau(tissue = "ovary")->Danio_rerio_tau
tau_input$Esox_lucius_tau_input %>% compute_tau(tissue = "ovary")->Esox_lucius_tau
tau_input$Gadus_morhua_tau_input %>% compute_tau(tissue = "ovary")->Gadus_morhua_tau
tau_input$Oryzias_latipes_tau_input %>% compute_tau(tissue = "ovary")->Oryzias_latipes_tau
tau_input$Salmo_salar_tau_input %>% compute_tau(tissue = "ovary")->Salmo_salar_tau
list(Astyanax_mexicanus = Astyanax_mexicanus_tau,
Astatotilapia_calliptera = Astatotilapia_calliptera_tau,
Danio_rerio = Danio_rerio_tau,
Esox_lucius = Esox_lucius_tau,
Gadus_morhua = Gadus_morhua_tau,
Oryzias_latipes = Oryzias_latipes_tau,
Salmo_salar = Salmo_salar_tau) %>% saveRDS("./RDS/Tau_0.8_TMM_cpm_no_log_no_combat_ovary.rds")
# Testis
tau_input$Astatotilapia_calliptera_tau_input %>% compute_tau(tissue = "testis")->Astatotilapia_calliptera_tau
tau_input$Astyanax_mexicanus_tau_input %>% compute_tau(tissue = "testis")->Astyanax_mexicanus_tau
tau_input$Danio_rerio_tau_input %>% compute_tau(tissue = "testis")->Danio_rerio_tau
tau_input$Esox_lucius_tau_input %>% compute_tau(tissue = "testis")->Esox_lucius_tau
tau_input$Gadus_morhua_tau_input %>% compute_tau(tissue = "testis")->Gadus_morhua_tau
tau_input$Gasterosteus_aculeatus_tau_input %>% compute_tau(tissue = "testis")->Gasterosteus_aculeatus_tau
tau_input$Neolamprologus_brichardi_tau_input %>% compute_tau(tissue = "testis")->Neolamprologus_brichardi_tau
tau_input$Oryzias_latipes_tau_input %>% compute_tau(tissue = "testis")->Oryzias_latipes_tau
tau_input$Salmo_salar_tau_input %>% compute_tau(tissue = "testis")->Salmo_salar_tau
list(Astyanax_mexicanus = Astyanax_mexicanus_tau,
Astatotilapia_calliptera = Astatotilapia_calliptera_tau,
Danio_rerio = Danio_rerio_tau,
Esox_lucius = Esox_lucius_tau,
Gadus_morhua = Gadus_morhua_tau,
Gasterosteus_aculeatus= Gasterosteus_aculeatus_tau,
Neolamprologus_brichardi = Neolamprologus_brichardi_tau,
Oryzias_latipes = Oryzias_latipes_tau,
Salmo_salar = Salmo_salar_tau) %>% saveRDS("./RDS/Tau_0.8_TMM_cpm_no_log_no_combat_testis.rds")Plot tissue specific genes
Here are the distribution of the tissue specific genes across the different teleost species.
#tissue specific genes
skin<-readRDS("./RDS/Tau_0.8_TMM_cpm_no_log_no_combat_skin.rds")
brain<-readRDS("./RDS/Tau_0.8_TMM_cpm_no_log_no_combat_brain.rds")
eye<-readRDS("./RDS/Tau_0.8_TMM_cpm_no_log_no_combat_eye.rds")
heart<-readRDS("./RDS/Tau_0.8_TMM_cpm_no_log_no_combat_heart.rds")
liver<-readRDS("./RDS/Tau_0.8_TMM_cpm_no_log_no_combat_liver.rds")
muscle<-readRDS("./RDS/Tau_0.8_TMM_cpm_no_log_no_combat_muscle.rds")
ovary<-readRDS("./RDS/Tau_0.8_TMM_cpm_no_log_no_combat_ovary.rds")
testis<-readRDS("./RDS/Tau_0.8_TMM_cpm_no_log_no_combat_testis.rds")
ts_plot<-function(species){
rbind(tibble(ts = length(brain[[species]]$Gene.ID),
tissue = "brain"),
tibble(ts = length(eye[[species]]$Gene.ID),
tissue = "eye"),
tibble(ts = length(heart[[species]]$Gene.ID),
tissue = "heart"),
tibble(ts = length(liver[[species]]$Gene.ID),
tissue = "liver"),
tibble(ts = length(muscle[[species]]$Gene.ID),
tissue = "muscle"),
tibble(ts = length(skin[[species]]$Gene.ID),
tissue = "skin"),
tibble(ts = length(ovary[[species]]$Gene.ID),
tissue = "ovary"),
tibble(ts = length(testis[[species]]$Gene.ID),
tissue = "testis"))->ts_df
p<-ggpubr::ggbarplot(ts_df, x = "tissue", y = "ts",fill = "grey",color = "grey",label = T,lab.pos = "out",lab.col = "darkred")+
ggpubr::rremove("legend")+
ggpubr::rremove("xlab")+
ggpubr::rremove("ylab")+
ggtitle(str_replace(species,pattern = "_",replacement = " "))+
theme(plot.title = element_text(hjust = 0.5,vjust = -0.5,face = "italic")) %>% return() # Center the title
#ggpubr::ggpar(p,title = str_replace(species,pattern = "_",replacement = " "),font.title = c(14,"italic","black"),title.position = "center") %>% return()
}
purrr::map(names(brain),ts_plot)->plot_listggpubr::ggarrange(plotlist = plot_list,ncol = 1,nrow = 12)
Session Info
sessionInfo()## R version 4.4.0 (2024-04-24)
## Platform: aarch64-apple-darwin20
## Running under: macOS Sonoma 14.4.1
##
## Matrix products: default
## BLAS: /Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/lib/libRblas.0.dylib
## LAPACK: /Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/lib/libRlapack.dylib; LAPACK version 3.12.0
##
## locale:
## [1] en_US.UTF-8/en_US.UTF-8/en_US.UTF-8/C/en_US.UTF-8/en_US.UTF-8
##
## time zone: Europe/Zurich
## tzcode source: internal
##
## attached base packages:
## [1] stats4 stats graphics grDevices utils datasets methods
## [8] base
##
## other attached packages:
## [1] DESeq2_1.44.0 SummarizedExperiment_1.34.0
## [3] MatrixGenerics_1.16.0 matrixStats_1.4.0
## [5] GenomicRanges_1.56.1 GenomeInfoDb_1.40.1
## [7] edgeR_4.2.1 limma_3.60.4
## [9] BgeeDB_2.30.1 topGO_2.56.0
## [11] SparseM_1.84-2 GO.db_3.19.1
## [13] AnnotationDbi_1.66.0 IRanges_2.38.1
## [15] S4Vectors_0.42.1 Biobase_2.64.0
## [17] graph_1.82.0 BiocGenerics_0.50.0
## [19] RColorBrewer_1.1-3 ggtree_3.12.0
## [21] phytools_2.3-0 maps_3.4.2
## [23] ape_5.8 kableExtra_1.4.0
## [25] lubridate_1.9.3 forcats_1.0.0
## [27] stringr_1.5.1 dplyr_1.1.4
## [29] purrr_1.0.2 readr_2.1.5
## [31] tidyr_1.3.1 tibble_3.2.1
## [33] ggplot2_3.5.1 tidyverse_2.0.0
##
## loaded via a namespace (and not attached):
## [1] rstudioapi_0.16.0 jsonlite_1.8.8 magrittr_2.0.3
## [4] farver_2.1.2 rmarkdown_2.28 fs_1.6.4
## [7] zlibbioc_1.50.0 vctrs_0.6.5 memoise_2.0.1
## [10] RCurl_1.98-1.16 rstatix_0.7.2 S4Arrays_1.4.1
## [13] htmltools_0.5.8.1 curl_5.2.2 broom_1.0.6
## [16] DEoptim_2.2-8 SparseArray_1.4.8 gridGraphics_0.5-1
## [19] sass_0.4.9 bslib_0.8.0 cachem_1.1.0
## [22] igraph_2.0.3 lifecycle_1.0.4 iterators_1.0.14
## [25] pkgconfig_2.0.3 Matrix_1.7-0 R6_2.5.1
## [28] fastmap_1.2.0 GenomeInfoDbData_1.2.12 digest_0.6.37
## [31] numDeriv_2016.8-1.1 aplot_0.2.3 colorspace_2.1-1
## [34] patchwork_1.2.0 RSQLite_2.3.7 ggpubr_0.6.0
## [37] labeling_0.4.3 clusterGeneration_1.3.8 fansi_1.0.6
## [40] timechange_0.3.0 abind_1.4-5 httr_1.4.7
## [43] compiler_4.4.0 bit64_4.0.5 withr_3.0.1
## [46] doParallel_1.0.17 backports_1.5.0 BiocParallel_1.38.0
## [49] optimParallel_1.0-2 carData_3.0-5 DBI_1.2.3
## [52] highr_0.11 R.utils_2.12.3 ggsignif_0.6.4
## [55] MASS_7.3-61 DelayedArray_0.30.1 scatterplot3d_0.3-44
## [58] tools_4.4.0 R.oo_1.26.0 glue_1.7.0
## [61] quadprog_1.5-8 nlme_3.1-166 grid_4.4.0
## [64] generics_0.1.3 gtable_0.3.5 tzdb_0.4.0
## [67] preprocessCore_1.66.0 R.methodsS3_1.8.2 data.table_1.16.0
## [70] hms_1.1.3 car_3.1-2 xml2_1.3.6
## [73] utf8_1.2.4 XVector_0.44.0 foreach_1.5.2
## [76] pillar_1.9.0 yulab.utils_0.1.7 vroom_1.6.5
## [79] treeio_1.28.0 lattice_0.22-6 bit_4.0.5
## [82] tidyselect_1.2.1 locfit_1.5-9.10 Biostrings_2.72.1
## [85] knitr_1.48 svglite_2.1.3 xfun_0.47
## [88] expm_1.0-0 statmod_1.5.0 stringi_1.8.4
## [91] UCSC.utils_1.0.0 lazyeval_0.2.2 ggfun_0.1.6
## [94] yaml_2.3.10 evaluate_0.24.0 codetools_0.2-20
## [97] ggplotify_0.1.2 cli_3.6.3 systemfonts_1.1.0
## [100] munsell_0.5.1 jquerylib_0.1.4 Rcpp_1.0.13
## [103] coda_0.19-4.1 png_0.1-8 parallel_4.4.0
## [106] blob_1.2.4 bitops_1.0-8 phangorn_2.11.1
## [109] viridisLite_0.4.2 tidytree_0.4.6 scales_1.3.0
## [112] crayon_1.5.3 combinat_0.0-8 rlang_1.1.4
## [115] cowplot_1.1.3 fastmatch_1.1-4 KEGGREST_1.44.1
## [118] mnormt_2.1.1Processing CSUBST output
In this section, I load the results of CSUBST and process them to obtain the first list of genes that satisfy the criteria for convergence. The final output combined_arity will be used to get the set of branch combinations.
Get the data
dir_path<-str_c("./Datasets/Output_CSUBST")
combine_csubsts<-function(.data){
og<-str_extract(.data,"OG[0-9]*")
try(read_tsv(.data) %>% mutate(Orthogroup = og) %>%
mutate(arity = (str_extract(files,"_[0-9]") %>% str_remove("_"))[[1]]) %>%
dplyr::select(c(Orthogroup,is_fg,omegaCany2spe,omegaCany2any,OCNany2any,OCNspe2any,OCNany2spe,OCSany2any,OCSspe2any,OCSany2spe,dNCany2spe,dNCany2any,dSCany2spe,dSCany2any,arity,contains("branch_id"))) %>%
filter(omegaCany2spe >=5 & OCNany2spe >=5)) %>%
return()
#To compare differences in mean OCN values between convergent-tissue specific genes remove the filters so as to get the values of the entire population
}
files<-list.files(path = dir_path, pattern = "\\cb_3.tsv$", full.names = TRUE, recursive = TRUE)
purrr::map(files,combine_csubsts) %>% purrr:::list_rbind()->Arity_3
Arity_3 %>% distinct(Orthogroup)->Arity_3_OG
files<-list.files(path = dir_path, pattern = "\\cb_4.tsv$", full.names = TRUE, recursive = TRUE)
purrr::map(files,combine_csubsts) %>% purrr:::list_rbind()->Arity_4
Arity_4 %>% distinct(Orthogroup)->Arity_4_OG
files<-list.files(path = dir_path, pattern = "\\cb_5.tsv$", full.names = TRUE, recursive = TRUE)
purrr::map(files,combine_csubsts) %>% purrr:::list_rbind()->Arity_5
Arity_5 %>% distinct(Orthogroup)->Arity_5_OG
files<-list.files(path = dir_path, pattern = "\\cb_6.tsv$", full.names = TRUE, recursive = TRUE)
purrr::map(files,combine_csubsts) %>% purrr:::list_rbind()->Arity_6
Arity_6 %>% distinct(Orthogroup)->Arity_6_OG
files<-list.files(path = dir_path, pattern = "\\cb_7.tsv$", full.names = TRUE, recursive = TRUE)
purrr::map(files,combine_csubsts) %>% purrr:::list_rbind()->Arity_7
Arity_7 %>% distinct(Orthogroup)->Arity_7_OG
files<-list.files(path = dir_path, pattern = "\\cb_8.tsv$", full.names = TRUE, recursive = TRUE)
purrr::map(files,combine_csubsts) %>% purrr:::list_rbind()->Arity_8
Arity_8 %>% distinct(Orthogroup)->Arity_8_OG
files<-list.files(path = dir_path, pattern = "\\cb_9.tsv$", full.names = TRUE, recursive = TRUE)
purrr::map(files,combine_csubsts) %>% purrr:::list_rbind()->Arity_9
Arity_9 %>% distinct(Orthogroup)->Arity_9_OG
files<-list.files(path = dir_path, pattern = "\\cb_10.tsv$", full.names = TRUE, recursive = TRUE)
purrr::map(files,combine_csubsts) %>% purrr:::list_rbind()->Arity_10
Arity_10 %>% distinct(Orthogroup)->Arity_10_OG
combined_arity<-bind_rows(Arity_3 %>% dplyr::select(Orthogroup,omegaCany2spe,OCNany2any,OCNspe2any,OCNany2spe,OCSany2any,OCSspe2any,OCSany2spe,dNCany2spe,dSCany2spe,arity,contains("branch_id")),
Arity_4 %>% dplyr::select(Orthogroup,omegaCany2spe,OCNany2any,OCNspe2any,OCNany2spe,OCSany2any,OCSspe2any,OCSany2spe,dNCany2spe,dSCany2spe,arity,contains("branch_id")),
Arity_5 %>% dplyr::select(Orthogroup,omegaCany2spe,OCNany2any,OCNspe2any,OCNany2spe,OCSany2any,OCSspe2any,OCSany2spe,dNCany2spe,dSCany2spe,arity,contains("branch_id")),
Arity_6 %>% dplyr::select(Orthogroup,omegaCany2spe,OCNany2any,OCNspe2any,OCNany2spe,OCSany2any,OCSspe2any,OCSany2spe,dNCany2spe,dSCany2spe,arity,contains("branch_id")),
Arity_7 %>% dplyr::select(Orthogroup,omegaCany2spe,OCNany2any,OCNspe2any,OCNany2spe,OCSany2any,OCSspe2any,OCSany2spe,dNCany2spe,dSCany2spe,arity,contains("branch_id")),
Arity_8 %>% dplyr::select(Orthogroup,omegaCany2spe,OCNany2any,OCNspe2any,OCNany2spe,OCSany2any,OCSspe2any,OCSany2spe,dNCany2spe,dSCany2spe,arity,contains("branch_id")),
Arity_9 %>% dplyr::select(Orthogroup,omegaCany2spe,OCNany2any,OCNspe2any,OCNany2spe,OCSany2any,OCSspe2any,OCSany2spe,dNCany2spe,dSCany2spe,arity,contains("branch_id")),
Arity_10 %>% dplyr::select(Orthogroup,omegaCany2spe,OCNany2any,OCNspe2any,OCNany2spe,OCSany2any,OCSspe2any,OCSany2spe,dNCany2spe,dSCany2spe,arity,contains("branch_id")))
combined_arity$arity <-str_replace(combined_arity$arity,'1','10')
combined_arity %>% saveRDS("./RDS/combined_arity.rds")Make table to use for csusbt site input
I now get the sets of branch combinations (arity) I will use as input for the CSUBST site algorithm.
#To make the table for the CSUBST site algorithm we will group by orthogroup and select the branch combinations with the highest arity values.
#Once computed, filter the site_table data frame to obtain the convergence metrics for the non-spurious convergent genes
make_site_data<-function(tissue,fname){
carity_tsp<-combined_arity
site_table<-carity_tsp %>% group_by(Orthogroup) %>% dplyr::slice(which.max(arity))
site_table %>% return()
#Arity 3
site_table %>% dplyr::filter(arity == 3) %>%
dplyr::select(Orthogroup,contains("branch_id")) %>%
select_if(~ !any(is.na(.))) %>%
write_csv(paste0("./Datasets/DatasetS0_csv_files/csubst_site_input/",fname,"_Arity_3.csv"))
#Arity 4
site_table %>% dplyr::filter(arity == 4) %>%
dplyr::select(Orthogroup,contains("branch_id")) %>%
select_if(~ !any(is.na(.))) %>%
write_csv(paste0("./Datasets/DatasetS0_csv_files/csubst_site_input/",fname,"_Arity_4.csv"))
#Arity 5
site_table %>% filter(arity == 5) %>%
dplyr::select(Orthogroup,contains("branch_id")) %>%
select_if(~ !any(is.na(.))) %>%
write_csv(paste0("./Datasets/DatasetS0_csv_files/csubst_site_input/",fname,"_Arity_5.csv"))
#Arity 6
site_table %>% filter(arity == 6) %>%
dplyr::select(Orthogroup,contains("branch_id")) %>%
select_if(~ !any(is.na(.))) %>%
write_csv(paste0("./Datasets/DatasetS0_csv_files/csubst_site_input/",fname,"_Arity_6.csv"))
#Arity 7
site_table %>% filter(arity == 7) %>%
dplyr::select(Orthogroup,contains("branch_id")) %>%
select_if(~ !any(is.na(.))) %>%
write_csv(paste0("./Datasets/DatasetS0_csv_files/csubst_site_input/",fname,"_Arity_7.csv"))
#Arity 8
site_table %>% filter(arity == 8) %>%
dplyr::select(Orthogroup,contains("branch_id")) %>%
select_if(~ !any(is.na(.))) %>%
write_csv(paste0("./Datasets/DatasetS0_csv_files/csubst_site_input/",fname,"_Arity_8.csv"))
#Arity 9
site_table %>% filter(arity == 9) %>%
dplyr::select(Orthogroup,contains("branch_id")) %>%
select_if(~ !any(is.na(.))) %>%
write_csv(paste0("./Datasets/DatasetS0_csv_files/csubst_site_input/",fname,"_Arity_9.csv"))
#Arity 10
site_table %>% filter(arity == 10) %>%
dplyr::select(Orthogroup,contains("branch_id")) %>%
select_if(~ !any(is.na(.))) %>%
write_csv(paste0("./Datasets/DatasetS0_csv_files/csubst_site_input/",fname,"_Arity_10.csv"))
}
make_site_data(tissue = combined_arity$Orthogroup,fname = "All")Check site model output for spurious amino acids substitutions.
In this section, I check for spurious convergence using several filtering and summary steps. Essentially, the idea is to find strong evidence of convergence by filtering values of the convergence metric OCNany2spe and filter out substitutions that are too close to one another on the protein structure. The non-spurious substitutions can be found in electronic supplementary material DatasetS6. The examples of spurious substitutions can be found in the electronic supplementary material DatasetS7. The final output non_spuroius_conv has the list of orthologs that satisfy my criteria.
files<-list.files(path = paste0("./Datasets/DatasetS6_Non_spurious_convergence"), pattern = "\\.tsv$", full.names = TRUE, recursive = TRUE)
trees<-list.files(path = paste0("./Datasets/DatasetS6_Non_spurious_convergence"), pattern = "\\csubst_tree.nwk$", full.names = TRUE, recursive = TRUE)
trees_df<-data.frame(id = str_extract(trees, "OG\\d{7}"),
tree_file = trees)
not_req<-list.files(path = paste0("./Datasets/DatasetS6_Non_spurious_convergence"), pattern = "\\csubst_site.state.*.tsv$", full.names = TRUE, recursive = TRUE)
identifiers<-str_extract(files, "OG\\d{7}")
file_df<-data.frame(id = identifiers,tsv_file = files) %>% distinct(tsv_file,.keep_all = T)
file_df<-file_df %>% filter(!tsv_file %in% not_req)
file_df<-file_df %>% mutate(model_name = purrr::map_chr(str_split(file_df$tsv_file,pattern = '\\.'),4)) %>%
mutate(aln_file = str_replace(file_df$tsv_file,"tsv","fa")) %>%
mutate(branches = str_extract(file_df$tsv_file,"branch_id.*/") %>% str_remove("branch_id") %>% str_remove("\\/"))
file_df<-left_join(file_df,trees_df) %>% distinct(id,.keep_all = T)
check_spurious_convergence <- function(x) {
library(tidyverse)
tryCatch({
# Extract OG name
og_name <- str_extract(x, "OG\\d{7}")
dat_prelim <- read_tsv(x)
dat_filter<-dat_prelim %>% filter(OCNany2spe != 0)
mean_OCNany2spe <- mean(dat_filter$OCNany2spe, na.rm = TRUE)
#select only the sites with high OCN value. This helps reduce false positives
if (!is.na(mean_OCNany2spe) && mean_OCNany2spe >= 0.6) {
dat <- read_tsv(x)
d <- dat %>% mutate(conv = ifelse(dat$OCNany2spe > 0.7, 1, 0)) %>% dplyr::select(codon_site_alignment, conv)
d2 <- d %>% filter(conv == 1)
#Adjust the value(0.5, here) to get sites not close to each other
if ((d2$codon_site_alignment[length(d2$codon_site_alignment)] - d2$codon_site_alignment[1]) / length(d$codon_site_alignment) >= 0.2) {
return(og_name)
}
}
else {
return(NULL)
}
})
}
make_spurious_plot<-function(x){
library(ggpubr)
og_name<-str_extract(x,"OG\\d{7}")
dat<-read_tsv(x)
d<-dat %>% mutate(conv = ifelse(dat$OCNany2spe >= 0.8, 1,0)) %>% dplyr::select(codon_site_alignment,conv)
p<-ggpubr::ggbarplot(d,x = "codon_site_alignment", y = "conv", color = "red3")+
ylim(0,2)+
xlab(og_name)+
rremove("ticks")+
rremove("x.text")+
rremove("y.text")
ggsave(plot = p, filename = paste0("./Plots/Spurious_site/",og_name,".pdf"),device = "pdf")
}
#Get the list of Orthologs without spurious convergence
purrr::map(file_df$tsv_file,check_spurious_convergence) %>% discard(is.null) %>% list_c()->non_spuroius_conv
non_spuroius_conv %>% write_csv("./Datasets/DatasetS0_csv_files/Non_spurious_conv.csv")
#Make a rudimentary bar plot to observe the distribution on sites along the protein structure. This is similar to the output produced by the CSUBST site algorithm (allows for quicker run through)
purrr::map(file_df %>% filter(id %in% non_spuroius_conv) %>% pull('tsv_file'),make_spurious_plot) # I have not included these plots in the data folder. Please refer to the original output from the CSUBST site algorithm in the site_csubst folderVisualise convergent branches
The following piece of code is used to visualise the gene trees, convergent branch combinations, and the alignments of the convergent sites. This piece of code produces the figures in the DatasetS8_Gene_trees_and_alignments folder.
csubst_vis<-function(OG){
library(ggmsa)
library(Biostrings)
library(ape)
library(ggtree)
library(treeio)
library(RColorBrewer)
library(pals)
extract_numerical_node_labels = function(tree) { #from Kenji Fukushima
labels = c(tree[['tip.label']], tree[['node.label']])
numerical_labels = as.integer(sub('.*\\|([0-9]*)$', '\\1', labels))
numerical_labels[is.na(numerical_labels)] = -1
label_names = sub('(.*)\\|[0-9]*$', '\\1', labels)
tip_names = label_names[1:length(tree[['tip.label']])]
node_names = label_names[(length(tree[['tip.label']])+1):length(label_names)]
tree[['tip.label']] = tip_names
tree[['node.label']] = node_names
attr(tree, 'numerical_label') = numerical_labels
return(tree)
}
file_df<-file_df %>% filter(id == OG)
#tree section
tree<-read.newick(file_df$tree_file)
tree<-extract_numerical_node_labels(tree)
p<-ggtree(tree,branch.length = "none")
data<-p$data
sp <- c("Anguilla_anguilla","Girardinichthys_multiradiatus","Nothobranchius_furzeri","Gambusia_affinis","Poecilia_reticulata","Xiphophorus_hellerii","Xiphophorus_couchianus","Xiphophorus_maculatus","Nematolebias_whitei","Megalops_atlanticus","Dallia_pectoralis","Parambassis_ranga","Etheostoma_spectabile","Etheostoma_cragini","Perca_fluviatilis","Perca_flavescens","Salvelinus_namaycush") # I did not use, or need to label specific species. Keeping in case any user wishes to do so.
data<-p$data %>% mutate(is_fg = sapply(label, function(x) any(str_detect(x, sp))))
nodes_to_connect<-file_df$branches
nodes_to_connect<-as.numeric(str_split(nodes_to_connect,",")[[1]])
data_to_connect <- subset(data, numerical_label %in% nodes_to_connect) %>% arrange(desc(angle)) %>%
dplyr::select(label,x,y,angle) %>% dplyr::rename(x.connect = x, y.connect = y, angle.connect = angle)
#MSA section
protein_sequences <- Biostrings::readAAStringSet(file_df$aln_file)
protein_sequences <- protein_sequences[!grepl(file_df$model_name,names(protein_sequences))]
site_tsv<-read_tsv(file_df$tsv_file) %>%
filter(OCNany2spe >= 0.5) %>% arrange(codon_site_alignment)
make_tidy_msa<-function(x){
msa<-tidy_msa(protein_sequences,start = x,end = x)
msa<-msa %>% separate(name, into = c("label","n2"),sep = "\\|") %>% dplyr::select(!n2) %>%
return()
}
dat_msa<-purrr::map(site_tsv$codon_site_alignment,make_tidy_msa) %>% list_rbind()
dat_msa$position<-as.numeric(factor(dat_msa$position))
data<-left_join(data,data_to_connect,keep = T) %>% dplyr::rename(label = label.x) %>% arrange(desc(angle.connect))
p$data<-data
h<-(p$data %>% filter(isTip == T) %>% nrow())/13
#custom color; I use this one
my_pal <- colorRampPalette(rev(brewer.pal(n = 9, name = "Reds")))
#this is an alternate palette that users can use.
my_custom <- data.frame(names = c(LETTERS[1:26],"-"),
color = c("#DABF25","grey70","#2540DA",
"#2540DA","#2540DA","#DABF25",
"#2540DA","#2540DA","#DABF25",
"grey70","#2540DA","#DABF25",
"#DABF25","#2540DA","grey70",
"#DABF25","#2540DA","#2540DA",
"#2540DA","#2540DA","grey70",
"#DABF25","#DABF25","#DABF25",
"#2540DA","#2540DA","grey75"),
stringsAsFactors = FALSE)
my_custom2<-data.frame(names = c(LETTERS[1:26],"-"),
color = c(my_pal(27)),
stringsAsFactors = FALSE)
#plotting section
p <- p + geom_tree(mapping = aes(color = is_fg),show.legend=FALSE) + scale_color_manual(values = c("TRUE" = "grey50", "FALSE" = "grey50"))#
p <- p + geom_tiplab(size = 7, as_ylab = T)#+scale_color_manual(values = c("TRUE"="grey50","FALSE"="grey50"))#
p <- p + geom_point2(aes(x = x.connect-0.01, y = y.connect), color = '#274DD8', size = 2)
p <- p + geom_curve(aes(x = x.connect-0.01, y = y.connect, xend = lead(x.connect), yend = lead(y.connect)), curvature = 0.1, color = "#274DD8") # get the line connecting convergent branches
p <- p + geom_facet(geom = geom_msa, data = dat_msa, panel = "msa", font = NULL, custom_color = my_custom2,char_width = 0.5)
p <- p + geom_facet(geom = geom_text, data = dat_msa, panel= "msa", mapping=aes(x=position, label=character), size=2, color='grey90')
p <- facet_widths(p, width=c(1,length(unique(dat_msa$position))/(ifelse(length(unique(dat_msa$position)) > 4,40,10))))
ggplot2::ggsave(plot = p,
filename = paste0("./Plots/Phylogenies/",OG,"_site",".svg"),
width = 10,
height = h,
units = "in",
scale = 1,
limitsize = F)
}
# Run the visualisation function on the non spurious convergence results
try(purrr::map(file_df %>% filter(id %in% non_spuroius_conv) %>% pull('id'), csubst_vis))Distribution of convergent genes
This section deals with looking at the distribution of the species that experience convergence to examine whether there are any patterns in the distribution of convergent genes across orders or species, and to get an idea of zoological traits the convergent genes might be influencing.
conv_sp<-read_csv("./Datasets/DatasetS0_csv_files/Convergence_in_species.csv")
fish_data<-read.csv("./Datasets/DatasetS0_csv_files/Fish_data.csv")
danio_conv<-read.csv("./Datasets/DatasetS0_csv_files/Danio_rerio_convergent_genes.csv")
tax_info_conv<-left_join(conv_sp,fish_data, by = "Species")
orth_list<-readRDS("./RDS/large_fish_tree_all_orders.rds")
orth_list<-orth_list %>% mutate(orths = str_remove(orth_list$orths,"..$"))
orth_list<-orth_list %>% mutate(Order = if_else(Order == "Carangaria", "Carangiformes", Order)) #Fix order name
orth_list<-left_join(orth_list %>% dplyr::rename(Species = sp),fish_data %>% dplyr::select(c(Species,Family)),by = "Species")
non_spuroius_conv<-read_csv("Datasets/DatasetS0_csv_files/Non_spurious_conv.csv")
seq_stat<-read_tsv("./Datasets/DatasetS0_csv_files/seq_stats.tsv") #use the seqkit toolkit (https://bioinf.shenwei.me/seqkit/) to obtain this
combined_arity <-readRDS("./RDS/combined_arity.rds")
#All convergent genes in all species and orders
left_join(tax_info_conv,danio_conv %>% dplyr::select(Orthogroup,Gene.name,Gene.description),by = "Orthogroup") %>% distinct(Protein_id, .keep_all = T)->tax_info_convNumber of convergent genes in each order
tax_info_conv %>% dplyr::count(Order) %>% arrange(desc(n))left_join(fish_data %>% dplyr::count(Order),
tax_info_conv %>% dplyr::count(Order),by = 'Order',suffix = c(".sp.order",".estimated")) %>%
replace(is.na(.), 0) %>% dplyr::select(Order,n.estimated)->test_dat
#Total number of genes in each order
left_join(orth_list %>% filter(Orthogroup %in% non_spuroius_conv$Orthogroup) %>% summarise(n.sampled = n(),.by = "Order"),test_dat)->test_dat_order
#fill in m,issing data
test_dat_order$Order[is.na(test_dat_order$Order)]<-"Lampriformes"
test_dat_order$n.sampled[is.na(test_dat_order$n.sampled)]<-1
test_dat_order$n.estimated[is.na(test_dat_order$n.estimated)]<-1Number of convergent genes in each family
tax_info_conv %>% dplyr::count(Family) %>% arrange(desc(n))left_join(fish_data %>% dplyr::count(Family),
tax_info_conv %>% dplyr::count(Family),by = 'Family',suffix = c(".sp.family",".estimated")) %>%
replace(is.na(.), 0) %>% dplyr::select(Family,n.estimated)->test_dat_family
#Total number of genes in each family
left_join(orth_list %>% filter(Orthogroup %in% non_spuroius_conv$Orthogroup) %>% summarise(n.sampled = n(),.by = "Family"),test_dat_family)->test_dat_familyComparing the distributions of convergent genes
Here I use the Kolmogorov-Smirnov test (KS test) to compare the
distributions of the total number of genes in each order vs number of
convergent genes estimated. The rationale is to check whether the
relative distributions of the convergent genes are different from that
of the number of genes that were sampled. This will tell us whether the
deviation between the number of gene sampled in each order and the
number of genes found convergent is meaningful.
The KS test is done with bootstrapping which is suitable for frequency
distributions of discrete variables (number of genes in each Order). See
https://rdrr.io/cran/kldtools/man/ksboot.html. I also
transform the values to allow for a clearer plot of the empirical
cumulative probability distributions (ECDF). The KS test output is the
same even if I use the untransformed values.
#Untransformed values
#dat<-test_dat2 %>% select(Order,n.conv.genes.order,n.genes.sample.order)
#dat<-dat %>% reshape2::melt()
#kldtools::ksboot(dat$value[dat$variable == "n.conv.genes.order"], dat$value[dat$variable == "n.genes.sample.order"],alternative = "two.sided",nboots = 1000)
#There is a significant difference between the two distributions.
#With transformed data. Add a pseudocount for log transformation followed by square root to remove negative values.
dat<-test_dat_order %>% dplyr::select(Order,n.estimated,n.sampled)
dat_order<-dat %>% mutate(n.estimated = log10(n.estimated+0.01)^2,
n.sampled = log10(n.sampled+0.01)^2)
kldtools::ksboot(x = dat_order$n.sampled,y = dat_order$n.estimated,alternative = "two.sided",nboots = 5000)## $ksboot.pvalue
## [1] 0
##
## $nboots
## [1] 5000#With transformed data. Add a pseudocount for log transformation followed by square root to remove negative values.
dat<-test_dat_family %>% dplyr::select(Family,n.estimated,n.sampled)
dat_family<-dat %>% mutate(n.estimated = log10(n.estimated+0.01)^2,
n.sampled = log10(n.sampled+0.01)^2)
kldtools::ksboot(x = dat_family$n.sampled,y = dat_family$n.estimated,alternative = "two.sided",nboots = 5000)## $ksboot.pvalue
## [1] 0
##
## $nboots
## [1] 5000KS test plot
Observe that the shape of the ECDF are different for the convergent genes (red) and total sampled genes (blue).
#For plotting
ksplot<-function(dat){
# create ECDF of data
cdf1 <- ecdf(dat$n.sampled)
cdf2 <- ecdf(dat$n.estimated)
dat<-dat %>% reshape2::melt()
ggplot(dat, aes(x = value, group = variable, color = variable))+
stat_ecdf(size=1) +
theme_minimal() +
theme(legend.position ="top") +
xlab("Value") +
ylab("ECDF") +
ggtitle("K-S Test: Convergent genes / Sampled genes") +
theme(legend.title=element_blank()) %>% return()
}
p1<-ksplot(dat_order)
p2<-ksplot(dat_family)
ggpubr::ggarrange(p1,p2, ncol = 2)
Distribution bar plots
These plot show the distribution of convergent and sampled genes in each Order.
#Distribution of convergent genes in each Family
dat<-test_dat_family %>%
mutate(convergent = round((n.estimated/sum(n.estimated))*100,digits = 1)) %>%
mutate(sampled = round((n.sampled/sum(n.sampled))*100,digits = 1)) %>%
dplyr::select(Family,convergent,sampled) %>%
reshape2::melt()
p1<-ggpubr::ggbarplot(dat, "Family", "value",
fill = "variable", color = "variable",
label = F,
position = position_dodge(0.9),
x.text.angle = 90,
palette = c("#EA5B15", "#1AAEC0"),
ylab = "Percentage of genes")+
scale_x_discrete(limits=c(sort(dat[[1]],decreasing = F)))
p1<-ggpubr::ggpar(p1,font.xtickslab = 10)
#Distribution of convergent genes in each order
dat<-test_dat_order %>%
mutate(convergent = round((n.estimated/sum(n.estimated))*100,digits = 1)) %>%
mutate(sampled = round((n.sampled/sum(n.sampled))*100,digits = 1)) %>%
dplyr::select(Order,convergent,sampled) %>%
reshape2::melt()
p2<-ggpubr::ggbarplot(dat, "Order", "value",
fill = "variable", color = "variable",
label = F,
position = position_dodge(0.9),
x.text.angle = 90,
palette = c("#EA5B15", "#1AAEC0"),
ylab = "Percentage of genes")+
scale_x_discrete(limits=c(sort(dat[[1]],decreasing = F)))
p2<-ggpubr::ggpar(p2,font.xtickslab = 10)
ggpubr::ggarrange(p1,p2,nrow = 2)
Zoological characteristics of the convergent species
Here I look at some of the zoological characteristics of the
convergent species. The data were collected from FishBase. Not all the
species had data. I only present the data that was available.
The table below shows number of species in our dataset from each
Family.
library(rfishbase)
fish_call<-validate_names(str_replace(fish_data$Species,"_"," "))
taxa<-rfishbase::load_taxa() %>% filter(Species %in% fish_call) %>% collect()
env_dat<-rfishbase::ecosystem(fish_call) %>% distinct(Species,.keep_all = T) %>% dplyr::select(Species,Salinity,EcosystemType,Climate)
env_dat<-env_dat %>% mutate(Species = str_replace_all(env_dat$Species," ","_"))
tax_info_conv<-left_join(tax_info_conv,env_dat,by = "Species")
#Fix the variable names; make them consistent
tax_info_conv$Climate[tax_info_conv$Climate=="Tropical"]<-"tropical"
tax_info_conv$Climate[tax_info_conv$Climate=="Subtropical"]<-"subtropical"
tax_info_conv$Climate[tax_info_conv$Climate=="Temperate"]<-"temperate"
tax_info_conv$Salinity[is.na(tax_info_conv$Salinity)]<-"saltwater"
tax_info_conv$Climate[is.na(tax_info_conv$Climate)]<-"tropical"
tax_info_conv$EcosystemType[is.na(tax_info_conv$EcosystemType)]<-"Sea/Bay/Gulf"
tax_info_conv %>% dplyr::count(Family) %>% arrange(desc(n))food_dat<-rfishbase::fooditems(fish_call) %>% distinct(Species,.keep_all = T) %>% dplyr::select(Species,FoodI,FoodII,FoodIII,Foodgroup)
food_dat<-food_dat %>% mutate(Species = str_replace_all(food_dat$Species," ","_"))
tax_info_conv<-left_join(tax_info_conv,food_dat,by = "Species")Climate
p1<-tax_info_conv %>% na.omit() %>% summarise(n = n(),.by = c(Orthogroup,Climate)) %>%
reshape2::melt() %>% ggpubr::ggbarplot(x = "Orthogroup",y = "value",fill = "Climate",color = "Climate",
x.text.angle = 90,label = F,palette = "jco",ylab = "Number of species",title = "Climate distribution of speices within convergent orthogroups")
p1
Food item
p2<-tax_info_conv %>% na.omit() %>% summarise(n = n(),.by = c(Orthogroup,FoodI)) %>%
reshape2::melt() %>% ggpubr::ggbarplot(x = "Orthogroup",y = "value",fill = "FoodI",color = "FoodI",
x.text.angle = 90,label = F,palette = "jco",ylab = "Number of species",title = "Food item distribution of speices within convergent orthogroups")
p2
Salinity
p3<-tax_info_conv %>% na.omit() %>% summarise(n = n(),.by = c(Orthogroup,Salinity)) %>%
reshape2::melt() %>% ggpubr::ggbarplot(x = "Orthogroup",y = "value",fill = "Salinity",color = "Salinity",
x.text.angle = 90,label = F,palette = "jco",ylab = "Number of species",title = "Salinity distribution of speices within convergent orthogroups")
p3
Ecosystem type
p4<-tax_info_conv %>% na.omit() %>% summarise(n = n(),.by = c(Orthogroup,EcosystemType)) %>%
reshape2::melt() %>% ggpubr::ggbarplot(x = "Orthogroup",y = "value",fill = "EcosystemType",color = "EcosystemType",
x.text.angle = 90,label = F,palette = "jco",ylab = "Number of species",title = "Ecosystem type distribution of speices within convergent orthogroups")
p4
Test of independence
Here I perform tests of independence to infer whether there is any relationship between convergence in one orthogroup and the ecological characters. After correcting for multiple testing, only 4 orthogroups show a significant relationship. However these relationships are with the undefined food variable ‘other’. As a result, we cannot make any biological relevant inference from this relationship.
gene_chi_sq<-function(orth)
{
t<-tax_info_conv %>% filter(Orthogroup == orth) %>% dplyr::select(Climate,Salinity,EcosystemType,FoodI,Orthogroup)
t<-rbind(t,
tax_info_conv %>% filter(!Orthogroup %in% t$Orthogroup) %>%
dplyr::select(Climate,Salinity,EcosystemType,FoodI) %>%
mutate(Orthogroup = "other")) %>% replace_na(list(FoodI = "unknown"))
t1<-chisq.test(table(t$Orthogroup,t$Salinity),simulate.p.value = T,B = 2000)$p.value
t2<-chisq.test(table(t$Orthogroup,t$Climate),simulate.p.value = T,B = 2000)$p.value
t3<-chisq.test(table(t$Orthogroup,t$EcosystemType),simulate.p.value = T,B = 2000)$p.value
t4<-chisq.test(table(t$Orthogroup,t$FoodI),simulate.p.value = T,B = 2000)$p.value
pval_list<-list(t1,t2,t3,t4)
names(pval_list)<-c("salinity","climate","ecosystem","food")
return(pval_list)
}
chi_res<-purrr::map(tax_info_conv %>% distinct(Orthogroup) %>% pull(),gene_chi_sq)
names(chi_res)<-tax_info_conv %>% distinct(Orthogroup) %>% pull()
purrr::list_flatten(chi_res) %>% p.adjust(method = "BH")## OG0000107_salinity OG0000107_climate OG0000107_ecosystem OG0000107_food
## 0.87345121 1.00000000 0.76716252 0.96876219
## OG0000135_salinity OG0000135_climate OG0000135_ecosystem OG0000135_food
## 0.76716252 0.82869092 0.93152719 0.76716252
## OG0000170_salinity OG0000170_climate OG0000170_ecosystem OG0000170_food
## 1.00000000 0.82869092 1.00000000 0.82869092
## OG0000195_salinity OG0000195_climate OG0000195_ecosystem OG0000195_food
## 0.71353685 0.76716252 0.82676309 1.00000000
## OG0000233_salinity OG0000233_climate OG0000233_ecosystem OG0000233_food
## 0.42136826 0.44477761 0.34396135 0.82869092
## OG0000236_salinity OG0000236_climate OG0000236_ecosystem OG0000236_food
## 0.84404309 0.84404309 0.44477761 0.91457396
## OG0000240_salinity OG0000240_climate OG0000240_ecosystem OG0000240_food
## 0.91457396 1.00000000 1.00000000 1.00000000
## OG0000243_salinity OG0000243_climate OG0000243_ecosystem OG0000243_food
## 0.87345121 1.00000000 0.84404309 0.82904741
## OG0000295_salinity OG0000295_climate OG0000295_ecosystem OG0000295_food
## 1.00000000 1.00000000 1.00000000 0.61990880
## OG0000348_salinity OG0000348_climate OG0000348_ecosystem OG0000348_food
## 0.76716252 1.00000000 0.93152719 0.52726364
## OG0000385_salinity OG0000385_climate OG0000385_ecosystem OG0000385_food
## 0.82869092 0.76716252 0.76716252 0.76716252
## OG0000454_salinity OG0000454_climate OG0000454_ecosystem OG0000454_food
## 1.00000000 0.82869092 1.00000000 0.82869092
## OG0000460_salinity OG0000460_climate OG0000460_ecosystem OG0000460_food
## 1.00000000 0.42136826 1.00000000 0.76716252
## OG0000479_salinity OG0000479_climate OG0000479_ecosystem OG0000479_food
## 0.44477761 0.76716252 0.48452370 0.76716252
## OG0000546_salinity OG0000546_climate OG0000546_ecosystem OG0000546_food
## 1.00000000 1.00000000 1.00000000 0.91052848
## OG0000762_salinity OG0000762_climate OG0000762_ecosystem OG0000762_food
## 1.00000000 0.93152719 1.00000000 0.93152719
## OG0000809_salinity OG0000809_climate OG0000809_ecosystem OG0000809_food
## 0.71353685 1.00000000 0.82869092 0.76716252
## OG0000853_salinity OG0000853_climate OG0000853_ecosystem OG0000853_food
## 0.48925537 0.82904741 0.44477761 0.03558221
## OG0000943_salinity OG0000943_climate OG0000943_ecosystem OG0000943_food
## 0.76716252 0.93152719 0.93152719 0.89250810
## OG0001037_salinity OG0001037_climate OG0001037_ecosystem OG0001037_food
## 0.82869092 0.84404309 0.89250810 0.28739476
## OG0001120_salinity OG0001120_climate OG0001120_ecosystem OG0001120_food
## 0.91457396 0.93279749 1.00000000 0.82869092
## OG0001196_salinity OG0001196_climate OG0001196_ecosystem OG0001196_food
## 0.71353685 0.93152719 0.82869092 1.00000000
## OG0001257_salinity OG0001257_climate OG0001257_ecosystem OG0001257_food
## 0.85218578 0.44477761 0.76716252 0.86448594
## OG0001287_salinity OG0001287_climate OG0001287_ecosystem OG0001287_food
## 0.70725131 0.70725131 0.82904741 1.00000000
## OG0001448_salinity OG0001448_climate OG0001448_ecosystem OG0001448_food
## 0.87345121 1.00000000 0.85218578 0.93152719
## OG0001509_salinity OG0001509_climate OG0001509_ecosystem OG0001509_food
## 0.44477761 0.07624759 0.44477761 0.76716252
## OG0001547_salinity OG0001547_climate OG0001547_ecosystem OG0001547_food
## 1.00000000 0.94865370 1.00000000 0.49742476
## OG0001663_salinity OG0001663_climate OG0001663_ecosystem OG0001663_food
## 0.52055454 0.91223711 0.70725131 0.52055454
## OG0001676_salinity OG0001676_climate OG0001676_ecosystem OG0001676_food
## 0.88115599 1.00000000 0.84404309 0.82869092
## OG0001781_salinity OG0001781_climate OG0001781_ecosystem OG0001781_food
## 0.91457396 0.96536611 1.00000000 1.00000000
## OG0001823_salinity OG0001823_climate OG0001823_ecosystem OG0001823_food
## 0.93279749 0.82869092 0.91223711 0.76716252
## OG0002084_salinity OG0002084_climate OG0002084_ecosystem OG0002084_food
## 1.00000000 0.82869092 1.00000000 1.00000000
## OG0002108_salinity OG0002108_climate OG0002108_ecosystem OG0002108_food
## 0.82869092 0.93152719 0.76716252 0.03558221
## OG0002113_salinity OG0002113_climate OG0002113_ecosystem OG0002113_food
## 0.84507746 0.70725131 0.71353685 0.64047976
## OG0002300_salinity OG0002300_climate OG0002300_ecosystem OG0002300_food
## 0.76716252 0.93152719 0.93152719 0.80000268
## OG0002454_salinity OG0002454_climate OG0002454_ecosystem OG0002454_food
## 1.00000000 0.84404309 0.82869092 0.93152719
## OG0002521_salinity OG0002521_climate OG0002521_ecosystem OG0002521_food
## 0.48452370 0.89250810 0.71353685 0.84404309
## OG0002545_salinity OG0002545_climate OG0002545_ecosystem OG0002545_food
## 0.82904741 0.08895552 0.76716252 0.84404309
## OG0002681_salinity OG0002681_climate OG0002681_ecosystem OG0002681_food
## 1.00000000 0.71353685 0.82869092 1.00000000
## OG0002718_salinity OG0002718_climate OG0002718_ecosystem OG0002718_food
## 0.44477761 0.84404309 0.42136826 0.84404309
## OG0002745_salinity OG0002745_climate OG0002745_ecosystem OG0002745_food
## 0.93152719 0.81364651 0.76716252 0.03558221
## OG0002859_salinity OG0002859_climate OG0002859_ecosystem OG0002859_food
## 0.71353685 0.82869092 0.82904741 0.82869092
## OG0003003_salinity OG0003003_climate OG0003003_ecosystem OG0003003_food
## 0.76716252 0.93152719 0.93152719 1.00000000
## OG0003321_salinity OG0003321_climate OG0003321_ecosystem OG0003321_food
## 0.87345121 0.82869092 0.78330279 0.82869092
## OG0003376_salinity OG0003376_climate OG0003376_ecosystem OG0003376_food
## 0.82869092 0.82869092 0.93152719 0.33040623
## OG0003603_salinity OG0003603_climate OG0003603_ecosystem OG0003603_food
## 0.91457396 0.76716252 0.86540440 0.90719929
## OG0003637_salinity OG0003637_climate OG0003637_ecosystem OG0003637_food
## 0.77930049 0.76716252 0.70725131 0.81886209
## OG0003642_salinity OG0003642_climate OG0003642_ecosystem OG0003642_food
## 0.76716252 0.93152719 0.93152719 0.89250810
## OG0003732_salinity OG0003732_climate OG0003732_ecosystem OG0003732_food
## 0.76716252 0.70725131 0.93152719 0.89250810
## OG0003806_salinity OG0003806_climate OG0003806_ecosystem OG0003806_food
## 0.83707146 0.58117608 0.76716252 1.00000000
## OG0003815_salinity OG0003815_climate OG0003815_ecosystem OG0003815_food
## 0.91223711 0.76716252 0.44477761 0.13837526
## OG0004038_salinity OG0004038_climate OG0004038_ecosystem OG0004038_food
## 0.76716252 1.00000000 0.93152719 0.82676309
## OG0004072_salinity OG0004072_climate OG0004072_ecosystem OG0004072_food
## 1.00000000 0.76716252 0.82869092 0.82869092
## OG0004372_salinity OG0004372_climate OG0004372_ecosystem OG0004372_food
## 0.87345121 0.84404309 0.44477761 0.83707146
## OG0004912_salinity OG0004912_climate OG0004912_ecosystem OG0004912_food
## 0.19273696 0.48408354 0.03558221 0.71353685
## OG0004928_salinity OG0004928_climate OG0004928_ecosystem OG0004928_food
## 0.44477761 0.76716252 0.44477761 0.58331490
## OG0005097_salinity OG0005097_climate OG0005097_ecosystem OG0005097_food
## 0.92664864 0.82869092 1.00000000 0.82869092
## OG0005130_salinity OG0005130_climate OG0005130_ecosystem OG0005130_food
## 0.48452370 0.76716252 0.48408354 0.03558221
## OG0005697_salinity OG0005697_climate OG0005697_ecosystem OG0005697_food
## 0.71353685 0.82869092 0.76716252 0.93279749
## OG0005761_salinity OG0005761_climate OG0005761_ecosystem OG0005761_food
## 0.58117608 0.53685438 0.76716252 0.76716252
## OG0006051_salinity OG0006051_climate OG0006051_ecosystem OG0006051_food
## 0.82869092 1.00000000 0.89250810 0.48452370
## OG0006328_salinity OG0006328_climate OG0006328_ecosystem OG0006328_food
## 0.76716252 1.00000000 0.93279749 0.84404309
## OG0006758_salinity OG0006758_climate OG0006758_ecosystem OG0006758_food
## 0.87345121 1.00000000 0.56134002 1.00000000
## OG0007270_salinity OG0007270_climate OG0007270_ecosystem OG0007270_food
## 1.00000000 1.00000000 0.92139922 0.80000268
## OG0007293_salinity OG0007293_climate OG0007293_ecosystem OG0007293_food
## 1.00000000 1.00000000 0.96010615 1.00000000
## OG0007347_salinity OG0007347_climate OG0007347_ecosystem OG0007347_food
## 0.71353685 0.82869092 0.76716252 0.44477761
## OG0007584_salinity OG0007584_climate OG0007584_ecosystem OG0007584_food
## 0.07624759 0.76716252 0.14232884 0.76716252
## OG0007789_salinity OG0007789_climate OG0007789_ecosystem OG0007789_food
## 0.87345121 1.00000000 0.80000268 0.42136826
## OG0007954_salinity OG0007954_climate OG0007954_ecosystem OG0007954_food
## 0.44477761 0.44477761 0.53685438 0.68243490
## OG0008369_salinity OG0008369_climate OG0008369_ecosystem OG0008369_food
## 1.00000000 0.44477761 0.91052848 0.92664864
## OG0008574_salinity OG0008574_climate OG0008574_ecosystem OG0008574_food
## 0.44477761 0.76716252 0.44477761 0.76716252
## OG0009762_salinity OG0009762_climate OG0009762_ecosystem OG0009762_food
## 0.88195219 0.61990880 0.44477761 0.71353685
## OG0009887_salinity OG0009887_climate OG0009887_ecosystem OG0009887_food
## 0.45562585 0.51950025 0.71353685 0.76716252
## OG0009939_salinity OG0009939_climate OG0009939_ecosystem OG0009939_food
## 1.00000000 0.71353685 0.82869092 0.70725131
## OG0010097_salinity OG0010097_climate OG0010097_ecosystem OG0010097_food
## 1.00000000 1.00000000 0.70725131 1.00000000
## OG0010204_salinity OG0010204_climate OG0010204_ecosystem OG0010204_food
## 0.76716252 1.00000000 0.93152719 0.82869092
## OG0010651_salinity OG0010651_climate OG0010651_ecosystem OG0010651_food
## 0.87345121 1.00000000 0.78330279 0.91052848
## OG0011063_salinity OG0011063_climate OG0011063_ecosystem OG0011063_food
## 0.44477761 0.61121052 0.70725131 0.91223711
## OG0011077_salinity OG0011077_climate OG0011077_ecosystem OG0011077_food
## 0.76716252 0.82869092 0.93152719 0.73202982
## OG0011512_salinity OG0011512_climate OG0011512_ecosystem OG0011512_food
## 0.87345121 0.84404309 0.85102149 0.68243490
## OG0011822_salinity OG0011822_climate OG0011822_ecosystem OG0011822_food
## 1.00000000 0.84404309 0.82869092 0.82904741
## OG0012202_salinity OG0012202_climate OG0012202_ecosystem OG0012202_food
## 0.52055454 0.82869092 0.73202982 0.82904741
## OG0012365_salinity OG0012365_climate OG0012365_ecosystem OG0012365_food
## 0.82869092 0.70725131 0.87345121 0.91223711
## OG0012467_salinity OG0012467_climate OG0012467_ecosystem OG0012467_food
## 0.70725131 0.79206972 0.19273696 0.52055454
## OG0012613_salinity OG0012613_climate OG0012613_ecosystem OG0012613_food
## 0.76716252 0.93152719 0.93152719 1.00000000
## OG0012978_salinity OG0012978_climate OG0012978_ecosystem OG0012978_food
## 0.88728402 1.00000000 0.79206972 1.00000000
## OG0013361_salinity OG0013361_climate OG0013361_ecosystem OG0013361_food
## 1.00000000 0.70725131 0.82869092 0.93152719
## OG0013516_salinity OG0013516_climate OG0013516_ecosystem OG0013516_food
## 0.87345121 0.83707146 0.84404309 0.91052848
## OG0013979_salinity OG0013979_climate OG0013979_ecosystem OG0013979_food
## 0.69071347 0.76716252 0.44477761 0.70725131Species vs Order
For each order, look at the species that has the highest number of convergent genes
tax_info_conv %>% filter(Order == "Perciformes") %>% summarise(n = n(),.by = Species) %>% arrange(desc(n)) %>% kbl() %>% kable_styling() %>%
scroll_box(width = "350px", height = "400px")| Species | n |
|---|---|
| Centropristis_striata | 14 |
| Anoplopoma_fimbria | 9 |
| Dissostichus_eleginoides | 7 |
| Chaenocephalus_aceratus | 7 |
| Pogonophryne_albipinna | 6 |
| Perca_fluviatilis | 5 |
| Perca_flavescens | 5 |
| Etheostoma_spectabile | 5 |
| Pseudochaenichthys_georgianus | 5 |
| Etheostoma_cragini | 5 |
| Cyclopterus_lumpus | 4 |
| Sander_lucioperca | 4 |
| Cottoperca_gobio | 3 |
| Plectropomus_leopardus | 3 |
| Sebastes_umbrosus | 3 |
| Epinephelus_lanceolatus | 2 |
tax_info_conv %>% filter(Order == "Cypriniformes") %>% summarise(n = n(),.by = Species) %>% arrange(desc(n)) %>% kbl() %>% kable_styling() %>%
scroll_box(width = "350px", height = "400px")| Species | n |
|---|---|
| Puntigrus_tetrazona | 3 |
| Onychostoma_macrolepis | 2 |
| Xyrauchen_texanus | 2 |
| Myxocyprinus_asiaticus | 2 |
| Ctenopharyngodon_idella | 1 |
| Cyprinus_carpio | 1 |
tax_info_conv %>% filter(Order == "Cyprinodontiformes") %>% summarise(n = n(),.by = Species) %>% arrange(desc(n)) %>% kbl() %>% kable_styling() %>%
scroll_box(width = "350px", height = "400px")| Species | n |
|---|---|
| Fundulus_heteroclitus | 6 |
| Xiphophorus_maculatus | 4 |
| Xiphophorus_hellerii | 4 |
| Gambusia_affinis | 4 |
| Poecilia_reticulata | 4 |
| Nothobranchius_furzeri | 4 |
| Kryptolebias_marmoratus | 3 |
| Xiphophorus_couchianus | 3 |
| Girardinichthys_multiradiatus | 2 |
| Nematolebias_whitei | 1 |
tax_info_conv %>% filter(Order == "Salmoniformes") %>% summarise(n = n(),.by = Species) %>% arrange(desc(n)) %>% kbl() %>% kable_styling() %>%
scroll_box(width = "350px", height = "400px")| Species | n |
|---|---|
| Salvelinus_namaycush | 2 |
| Salvelinus_fontinalis | 2 |
| Salmo_salar | 2 |
| Oncorhynchus_keta | 2 |
| Oncorhynchus_mykiss | 2 |
| Coregonus_clupeaformis | 2 |
| Oncorhynchus_gorbuscha | 1 |
| Oncorhynchus_nerka | 1 |
| Oncorhynchus_tshawytscha | 1 |
| Oncorhynchus_kisutch | 1 |
tax_info_conv %>% filter(Order == "Eupercaria") %>% summarise(n = n(),.by = Species) %>% arrange(desc(n)) %>% kbl() %>% kable_styling() %>%
scroll_box(width = "350px", height = "400px")| Species | n |
|---|---|
Tissue-specific convergent orthologs
To get a deeper insight into the role of molecular convergence in adaptive evolution, I identify convergent genes that also have tissue-specific gene expression. Looking at tissue-specificity I observe that most of the convergent genes are not tissue-specific and there is no relationship between tissue specificity and being convergent (as per fisher’s exact test). I also observe that there is no significant difference between the proportion of genes that are convergent and tissue specific versus the proportion of genes that are tissue specific in the whole sample (Wilcoxon signed rank test).
Load the data
#Ortholog list
orth_list<-readRDS("./RDS/large_fish_tree_all_orders.rds")
orth_list<-orth_list %>% mutate(orths = str_remove(orth_list$orths,"..$"))
combined_arity <-readRDS("./RDS/combined_arity.rds")
non_spuroius_conv<-read_csv("Datasets/DatasetS0_csv_files/Non_spurious_conv.csv")
### tissue specific genes. (check Bgee processing rmd to know how to get these)
skin<-orth_list %>% filter(orths %in% (readRDS("./RDS/Tau_0.8_TMM_cpm_with_log_no_combat_skin.rds")
%>% purrr::list_rbind() %>% dplyr::select(Gene.ID))$Gene.ID)
brain<-orth_list %>% filter(orths %in% (readRDS("./RDS/Tau_0.8_TMM_cpm_with_log_no_combat_brain.rds")
%>% purrr::list_rbind() %>% dplyr::select(Gene.ID))$Gene.ID)
eye<-orth_list %>% filter(orths %in% (readRDS("./RDS/Tau_0.8_TMM_cpm_with_log_no_combat_eye.rds")
%>% purrr::list_rbind() %>% dplyr::select(Gene.ID))$Gene.ID)
heart<-orth_list %>% filter(orths %in% (readRDS("./RDS/Tau_0.8_TMM_cpm_with_log_no_combat_heart.rds")
%>% purrr::list_rbind() %>% dplyr::select(Gene.ID))$Gene.ID)
liver<-orth_list %>% filter(orths %in% (readRDS("./RDS/Tau_0.8_TMM_cpm_with_log_no_combat_liver.rds")
%>% purrr::list_rbind() %>% dplyr::select(Gene.ID))$Gene.ID)
muscle<-orth_list %>% filter(orths %in% (readRDS("./RDS/Tau_0.8_TMM_cpm_with_log_no_combat_muscle.rds")
%>% purrr::list_rbind() %>% dplyr::select(Gene.ID))$Gene.ID)
ovary<-orth_list %>% filter(orths %in% (readRDS("./RDS/Tau_0.8_TMM_cpm_with_log_no_combat_ovary.rds")
%>% purrr::list_rbind() %>% dplyr::select(Gene.ID))$Gene.ID)
testis<-orth_list %>% filter(orths %in% (readRDS("./RDS/Tau_0.8_TMM_cpm_with_log_no_combat_testis.rds")
%>% purrr::list_rbind() %>% dplyr::select(Gene.ID))$Gene.ID)
#Get the orthologs that are exclusively tissue specific for each tissue
#brain
ts_list<-list(brain,eye,heart,liver,muscle,skin,ovary,testis) #change the first entry in the list when computing exclusive orthologs
brain_excl<-purrr::reduce(ts_list,anti_join, by = "Orthogroup")# %>% write_csv("./Datasets/DatasetS0_csv_files/Brain_exclusive_orths.csv")
#eye
ts_list<-list(eye,brain,heart,liver,muscle,skin,ovary,testis) #change the first entry in the list when computing exclusive orthologs
eye_excl<-purrr::reduce(ts_list,anti_join, by = "Orthogroup")# %>% write_csv("./Datasets/DatasetS0_csv_files/Eye_exclusive_orths.csv")
#heart
ts_list<-list(heart,brain,eye,liver,muscle,skin,ovary,testis) #change the first entry in the list when computing exclusive orthologs
heart_excl<-purrr::reduce(ts_list,anti_join, by = "Orthogroup")# %>% write_csv("./Datasets/DatasetS0_csv_files/Heart_exclusive_orths.csv")
#liver
ts_list<-list(liver,eye,brain,heart,muscle,skin,ovary,testis) #change the first entry in the list when computing exclusive orthologs
liver_excl<-purrr::reduce(ts_list,anti_join, by = "Orthogroup")# %>% write_csv("./Datasets/DatasetS0_csv_files/Liver_exclusive_orths.csv")
#muscle
ts_list<-list(muscle,eye,brain,heart,liver,skin,ovary,testis) #change the first entry in the list when computing exclusive orthologs
muscle_excl<-purrr::reduce(ts_list,anti_join, by = "Orthogroup")# %>% write_csv("./Datasets/DatasetS0_csv_files/Muscle_exclusive_orths.csv")
#skin
ts_list<-list(skin,eye,brain,heart,liver,muscle,ovary,testis) #change the first entry in the list when computing exclusive orthologs
skin_excl<-purrr::reduce(ts_list,anti_join, by = "Orthogroup")# %>% write_csv("./Datasets/DatasetS0_csv_files/Skin_exclusive_orths.csv")
#ovary
ts_list<-list(ovary,eye,brain,heart,liver,muscle,skin,testis) #change the first entry in the list when computing exclusive orthologs
ovary_excl<-purrr::reduce(ts_list,anti_join, by = "Orthogroup")# %>% write_csv("./Datasets/DatasetS0_csv_files/Overy_exclusive_orths.csv")
#testis
ts_list<-list(testis,eye,brain,heart,liver,muscle,skin,ovary) #change the first entry in the list when computing exclusive orthologs
testis_excl<-purrr::reduce(ts_list,anti_join, by = "Orthogroup")# %>% write_csv("./Datasets/DatasetS0_csv_files/Testis_exclusive_orths.csv")
# Check the relative proportion of tissue specific orthogroups vs all orthogroups in the species
bind_rows(tibble(group = "Brain specific", ts.prop = (length((brain_excl %>% distinct(Orthogroup))$Orthogroup)/length((orth_list %>% filter(sp %in% brain_excl$sp) %>% distinct(Orthogroup))$Orthogroup))*100),
tibble(group = "Eye specific", ts.prop = (length((eye_excl %>% distinct(Orthogroup))$Orthogroup)/length((orth_list %>% filter(sp %in% eye_excl$sp) %>% distinct(Orthogroup))$Orthogroup))*100),
tibble(group = "Heart specific", ts.prop = (length((heart_excl %>% distinct(Orthogroup))$Orthogroup)/length((orth_list %>% filter(sp %in% heart_excl$sp) %>% distinct(Orthogroup))$Orthogroup))*100),
tibble(group = "Liver specific", ts.prop = (length((liver_excl %>% distinct(Orthogroup))$Orthogroup)/length((orth_list %>% filter(sp %in% liver_excl$sp) %>% distinct(Orthogroup))$Orthogroup))*100),
tibble(group = "Muscle specific", ts.prop = (length((muscle_excl %>% distinct(Orthogroup))$Orthogroup)/length((orth_list %>% filter(sp %in% muscle_excl$sp) %>% distinct(Orthogroup))$Orthogroup))*100),
tibble(group = "Skin specific", ts.prop = (length((skin_excl %>% distinct(Orthogroup))$Orthogroup)/length((orth_list %>% filter(sp %in% skin_excl$sp) %>% distinct(Orthogroup))$Orthogroup))*100),
tibble(group = "Ovary specific", ts.prop = (length((ovary_excl %>% distinct(Orthogroup))$Orthogroup)/length((orth_list %>% filter(sp %in% ovary_excl$sp) %>% distinct(Orthogroup))$Orthogroup))*100),
tibble(group = "Testis specific", ts.prop = (length((testis_excl %>% distinct(Orthogroup))$Orthogroup)/length((orth_list %>% filter(sp %in% testis_excl$sp) %>% distinct(Orthogroup))$Orthogroup))*100))->ts_prop_datConvergent genes that are also tissue specific
#convergent genes that are also tissue specific
d<-combined_arity %>% filter(Orthogroup %in% non_spuroius_conv$Orthogroup) %>% distinct(Orthogroup)
d<-d %>% mutate(c = "TRUE") %>%
mutate(brain_c = if_else(d$Orthogroup %in% brain_excl$Orthogroup, TRUE, FALSE)) %>%
mutate(eye_c = if_else(d$Orthogroup %in% eye_excl$Orthogroup, TRUE, FALSE)) %>%
mutate(heart_c = if_else(d$Orthogroup %in% heart_excl$Orthogroup, TRUE, FALSE)) %>%
mutate(liver_c = if_else(d$Orthogroup %in% liver_excl$Orthogroup, TRUE, FALSE)) %>%
mutate(muscle_c = if_else(d$Orthogroup %in% muscle_excl$Orthogroup, TRUE, FALSE)) %>%
mutate(skin_c = if_else(d$Orthogroup %in% skin_excl$Orthogroup, TRUE, FALSE)) %>%
mutate(ovary_c = if_else(d$Orthogroup %in% ovary_excl$Orthogroup, TRUE, FALSE)) %>%
mutate(testis_c = if_else(d$Orthogroup %in% testis_excl$Orthogroup, TRUE, FALSE))
print(paste("Number of brain-specific convergent genes:",matrixStats::count(d$brain_c)))## [1] "Number of brain-specific convergent genes: 5"print(paste("Number of eye-specific convergent genes:",matrixStats::count(d$eye_c)))## [1] "Number of eye-specific convergent genes: 1"print(paste("Number of heart-specific convergent genes:",matrixStats::count(d$heart_c)))## [1] "Number of heart-specific convergent genes: 1"print(paste("Number of liver-specific convergent genes:",matrixStats::count(d$liver_c)))## [1] "Number of liver-specific convergent genes: 13"print(paste("Number of muscle-specific convergent genes:",matrixStats::count(d$muscle_c)))## [1] "Number of muscle-specific convergent genes: 1"print(paste("Number of skin-specific convergent genes:",matrixStats::count(d$skin_c)))## [1] "Number of skin-specific convergent genes: 2"print(paste("Number of ovary-specific convergent genes:",matrixStats::count(d$ovary_c)))## [1] "Number of ovary-specific convergent genes: 2"print(paste("Number of testis-specific convergent genes:",matrixStats::count(d$testis_c)))## [1] "Number of testis-specific convergent genes: 4"library(ggpubr)
library(rstatix)
library(coin)Fisher’s exact test
#Fishers exact test
cont_dat<-tibble(orth_list %>% distinct(Orthogroup))
cont_dat %>% mutate(is_convergent = if_else(cont_dat$Orthogroup %in% d$Orthogroup,TRUE,FALSE)) %>%
mutate(brain_spec = if_else(cont_dat$Orthogroup %in% (brain_excl %>% distinct(Orthogroup))$Orthogroup, TRUE, FALSE)) %>%
mutate(eye_spec = if_else(cont_dat$Orthogroup %in% (eye_excl %>% distinct(Orthogroup))$Orthogroup, TRUE, FALSE)) %>%
mutate(heart_spec = if_else(cont_dat$Orthogroup %in% (heart_excl %>% distinct(Orthogroup))$Orthogroup, TRUE, FALSE)) %>%
mutate(liver_spec = if_else(cont_dat$Orthogroup %in% (liver_excl %>% distinct(Orthogroup))$Orthogroup, TRUE, FALSE)) %>%
mutate(muscle_spec = if_else(cont_dat$Orthogroup %in% (muscle_excl %>% distinct(Orthogroup))$Orthogroup, TRUE, FALSE)) %>%
mutate(skin_spec = if_else(cont_dat$Orthogroup %in% (skin_excl %>% distinct(Orthogroup))$Orthogroup, TRUE, FALSE)) %>%
mutate(ovary_spec = if_else(cont_dat$Orthogroup %in% (ovary_excl %>% distinct(Orthogroup))$Orthogroup, TRUE, FALSE)) %>%
mutate(testis_spec = if_else(cont_dat$Orthogroup %in% (testis_excl %>% distinct(Orthogroup))$Orthogroup, TRUE, FALSE))->cont_dat
ft<-function(x){
res<-fisher.test(cont_dat$is_convergent,x,alternative = "greater")
if (res$p.value < 0.05) {
return(cat(paste(
"p-value:",
round(res$p.value, 3),
"Therefore, there IS a significant difference between convergent/non-convergent ratio between tissue-specific and non tissue-specific genes.",
sep="\n")))
} else {
return(cat(paste(
"p-value:",
round(res$p.value, 3),
"Therefore, there is NOT a significant difference between convergent/non-convergent ratio between tissue-specific and non tissue-specific genes.",
sep="\n")))
}
}
purrr::map(list(cont_dat$brain_spec,cont_dat$eye_spec,cont_dat$heart_spec,
cont_dat$liver_spec,cont_dat$muscle_spec,cont_dat$skin_spec,cont_dat$ovary_spec,
cont_dat$testis_spec),ft) %>% purrr::flatten()## p-value:
## 0.949
## Therefore, there is NOT a significant difference between convergent/non-convergent ratio between tissue-specific and non tissue-specific genes.p-value:
## 0.581
## Therefore, there is NOT a significant difference between convergent/non-convergent ratio between tissue-specific and non tissue-specific genes.p-value:
## 0.326
## Therefore, there is NOT a significant difference between convergent/non-convergent ratio between tissue-specific and non tissue-specific genes.p-value:
## 0
## Therefore, there IS a significant difference between convergent/non-convergent ratio between tissue-specific and non tissue-specific genes.p-value:
## 0.759
## Therefore, there is NOT a significant difference between convergent/non-convergent ratio between tissue-specific and non tissue-specific genes.p-value:
## 0.319
## Therefore, there is NOT a significant difference between convergent/non-convergent ratio between tissue-specific and non tissue-specific genes.p-value:
## 0.192
## Therefore, there is NOT a significant difference between convergent/non-convergent ratio between tissue-specific and non tissue-specific genes.p-value:
## 0.271
## Therefore, there is NOT a significant difference between convergent/non-convergent ratio between tissue-specific and non tissue-specific genes.## list()cont_plot_dat<-bind_rows(tibble(group = "Brain specific", genes = (cont_dat %>% filter(is_convergent == T) %>% pull(brain_spec) %>% matrixStats::count())/matrixStats::count(cont_dat$is_convergent)*100),
tibble(group = "Eye specific", genes = (cont_dat %>% filter(is_convergent == T) %>% pull(eye_spec) %>% matrixStats::count())/matrixStats::count(cont_dat$is_convergent)*100),
tibble(group = "Heart specific", genes = (cont_dat %>% filter(is_convergent == T) %>% pull(heart_spec) %>% matrixStats::count())/matrixStats::count(cont_dat$is_convergent)*100),
tibble(group = "Liver specific", genes = (cont_dat %>% filter(is_convergent == T) %>% pull(liver_spec) %>% matrixStats::count())/matrixStats::count(cont_dat$is_convergent)*100),
tibble(group = "Muscle specific", genes = (cont_dat %>% filter(is_convergent == T) %>% pull(muscle_spec) %>% matrixStats::count())/matrixStats::count(cont_dat$is_convergent)*100),
tibble(group = "Skin specific", genes = (cont_dat %>% filter(is_convergent == T) %>% pull(skin_spec) %>% matrixStats::count())/matrixStats::count(cont_dat$is_convergent)*100),
tibble(group = "Ovary specific", genes = (cont_dat %>% filter(is_convergent == T) %>% pull(ovary_spec) %>% matrixStats::count())/matrixStats::count(cont_dat$is_convergent)*100),
tibble(group = "Testis specific", genes = (cont_dat %>% filter(is_convergent == T) %>% pull(testis_spec) %>% matrixStats::count())/matrixStats::count(cont_dat$is_convergent)*100))Difference in proportions of tissue specific and convergent genes
I wanted to check whether the proportion of convergent tissue specific orthogroups was different from the proportion of tissue specific orthogroups when compared to all the orthogroups sampled. Using a Wilcoxon signed rank test I see that there is no significant difference between the proportion of genes that are convergent and tissue specific versus the proportion of genes that are tissue specific in the whole sample. This is added evidence that there is no relationship between convergence and tissue specificity implying convergent orthologs are not more likely to be tissue specific.
wil.test.dat<-left_join(cont_plot_dat,ts_prop_dat)
wilcox.test(x=wil.test.dat$genes,
y=wil.test.dat$ts.prop,
paired = T,exact = T,
alternative = "two.sided")##
## Wilcoxon signed rank exact test
##
## data: wil.test.dat$genes and wil.test.dat$ts.prop
## V = 27, p-value = 0.25
## alternative hypothesis: true location shift is not equal to 0plot_dat<-wil.test.dat %>% dplyr::rename(`tissue specific convergent genes` = genes) %>% dplyr::rename(`tissue specific genes overall` = ts.prop) %>% reshape2::melt() %>% mutate(value = round(value,digits = 1))
ggpubr::ggbarplot(plot_dat, x = "group",y = "value",fill = "variable",alpha=0.7,
color = "black",palette = c("#EA5B15","#1AAEC0"),
position = position_dodge(0.8),ylab = "Relative proportion\nof genes (%)")+
theme(axis.text.x = element_text(angle = 90,size = 8, vjust = 0.2),
legend.position = "right")
Relationships between copy number and convergence
The convergnece estimates could be biased by the higher power of the OCN convergence metric for longer genes or orthogroups containing more genes simply because the sequence space is larger. I used a Pearson correlation test to check whether the length or the number of genes in each orthogroup introduced any bias. I found no significant relationship between gene number or gene length and the OCN metric, suggesting that the OCN value strictly depends on sequence variation, and that such bias is not a concern in our data.
OCN ~ number of genes
There was no significant relationship between OCN and number of genes in Orthogroup
#Relationship between OCN and number of genes in Orthogroup
seq_stat<-read_tsv("./Datasets/DatasetS0_csv_files/seq_stats.tsv") #use the seqkit toolkit (https://bioinf.shenwei.me/seqkit/) to obtain this
combined_arity<-combined_arity %>% filter(Orthogroup %in% non_spuroius_conv$Orthogroup)
cor_dat<-left_join(combined_arity %>% summarise(mean_OCN = log10(mean(OCNany2spe)),.by = "Orthogroup") %>% drop_na(),seq_stat,by = "Orthogroup")cor.test(log10(cor_dat$mean_OCN), cor_dat$num_seqs, method = "pearson")##
## Pearson's product-moment correlation
##
## data: log10(cor_dat$mean_OCN) and cor_dat$num_seqs
## t = 1.6687, df = 87, p-value = 0.09877
## alternative hypothesis: true correlation is not equal to 0
## 95 percent confidence interval:
## -0.03337226 0.37076699
## sample estimates:
## cor
## 0.1761084ocn_gene_cor_plot<-ggpubr::ggscatter(cor_dat,x = "mean_OCN", y = "num_seqs", add = "reg.line", cor.coef = T, cor.method = "pearson",color = "grey70",add.params = list(color = "red3"))+
xlab("Mean log10(OCN) value")+
ylab("Average number of genes in orthgroup")+
font("xlab", size = 10)+
font("ylab", size = 10)OCN ~ length of genes
There was no significant relationship between OCN and the length of genes in Orthogroup
cor.test(log(cor_dat$mean_OCN), cor_dat$avg_len, method = "pearson")##
## Pearson's product-moment correlation
##
## data: log(cor_dat$mean_OCN) and cor_dat$avg_len
## t = -0.6184, df = 87, p-value = 0.5379
## alternative hypothesis: true correlation is not equal to 0
## 95 percent confidence interval:
## -0.2706822 0.1440872
## sample estimates:
## cor
## -0.06615467ocn_len_cor_plot<-ggpubr::ggscatter(cor_dat,x = "mean_OCN", y = "avg_len", add = "reg.line", cor.coef = T, cor.method = "pearson",color = "grey70",add.params = list(color = "red3"))+
xlab("Mean log10(OCN) value")+
ylab("Average length of genes (bp) in orthgroup")+
font("xlab", size = 10)+
font("ylab", size = 10)Correlation plots
gridExtra::grid.arrange(ocn_gene_cor_plot,ocn_len_cor_plot,ncol=2)
Distribution of gene copies in convergent orthogroups
In this section I want to check whether the distribution of gene copy numbers in the set of convergent orthogroups is generally higher than the other orthogroups in our data set. To do this I make a data frame with the copy number distribution of convergent orthogroups and 89 randomly selected non-convergent orthogroups and perform the KS test. I repeat this test 1000 times with different sets of randomly selected orthogroups. Following this I adjust all the p-values for multiple correction and plot the p-value distribution. As we can observe an overwhelming number of the p-values are closer to zero.
conv_seq<-seq_stat %>% filter(Orthogroup %in% non_spuroius_conv$Orthogroup)
bg_seq<-seq_stat %>% filter(!Orthogroup %in% non_spuroius_conv$Orthogroup) %>% filter(num_seqs < 1500)
boot_ks<-function(){
ks_data_frame <- function() {
tibble(n.estimated = conv_seq$num_seqs,
n.sampled = bg_seq[runif(89,min = 1,max = 9184) %>% round(),]$num_seqs)
}
map(1:1000, function(x) ks_data_frame())->ls
run_ks<-function(d){
kldtools::ksboot(x = d$n.sampled,
y = d$n.estimated,
alternative = "greater",nboots = 5000)$ksboot.pvalue
}
map(ls,run_ks) %>% return()
}
ks_test_pvalues<-tibble(adj.p.values = p.adjust(p = boot_ks(),method = "BH"))
ks_test_pvalues %>% saveRDS("./RDS/num_seq_KS_pvals.rds")conv_seq<-seq_stat %>% filter(Orthogroup %in% non_spuroius_conv$Orthogroup)
bg_seq<-seq_stat %>% filter(!Orthogroup %in% non_spuroius_conv$Orthogroup) %>% filter(num_seqs < 1500)
plot_dat<-tibble(n.estimated = conv_seq$num_seqs,
n.sampled = bg_seq[runif(89,min = 1,max = 9184) %>% round(),]$num_seqs)
est_mean<-mean(plot_dat$n.estimated)
p1<-plot_dat %>% dplyr::rename("Convergent genes"="n.estimated",
"Non-convergent genes"="n.sampled") %>%
pivot_longer(c(`Convergent genes`,`Non-convergent genes`),
names_to = "Type of gene") %>%
ggplot(aes(x=log2(value),fill = `Type of gene`))+
geom_density(alpha=0.6)+
geom_vline(xintercept = log2(mean(plot_dat$n.estimated)), color="#EA5B15", linetype="dashed")+
geom_vline(xintercept = log2(mean(plot_dat$n.sampled)), color="#74D1F5", linetype="dashed")+
scale_fill_manual(values = c("#EA5B15","#1AAEC0"))+
xlab("Number of gene copies (log2)")+
labs(title = "Gene copy distribution of convergent\nand randomly sampled genes",
subtitle = "Dashed lines indicate mean gene copy number",
caption = "Bootstrapped Kolmogorov-Smirnov test p-value = 0.002")+
theme_bw()
ks_test_pvalues<-readRDS("./RDS/num_seq_KS_pvals.rds")
p2<-ks_test_pvalues %>% ggplot(aes(x = adj.p.values, y=..density..))+
geom_histogram(binwidth = .002,color="black",fill="white")+
geom_vline(xintercept = mean(ks_test_pvalues$adj.p.values), linetype="dashed")+
xlab("BH adjusted p-value")+
labs(subtitle = "P-value distribution of one sided\nKolmogorov-Smirnov test\nmean p-value = 0.002 (dashed line)")+theme_bw()
ggarrange(p1,p2, ncol = 1)
Gene Ontology Term enrichment
In this section, I perform a Gene Ontology (GO) enrichment to identify the major biological processes represented in the list of convergent genes. The gene universe was obtained by annotating the genes of the fish species in Bgee using DeepGO.
GO enrichment analysis
library(GOstats)
library(GO.db)
library(GSEABase)
library(AnnotationDbi)
library(RSQLite)
library(tidyverse)
annot<-readRDS("./RDS/annot_processed.rds")
goFrame<-GOFrame(as.data.frame(annot, organism = "fish"))
goAllFrame<-GOAllFrame(goFrame)
gsc<-GeneSetCollection(goAllFrame,setType = GOCollection())
universe<-annot$gene
GO_enrich<-function(.data){
up<-GSEAGOHyperGParams(name = "GO enrich",
geneSetCollection = gsc,
geneIds = .data,
universeGeneIds = universe,
ontology = "CC", #options: BP, MF, CC
pvalueCutoff = 0.05,
conditional = F,
testDirection = "over")
Over_up<- hyperGTest(up)
Over_up.pv<-pvalues(Over_up)
pv.fdr<-p.adjust(Over_up.pv,"fdr")
summary(Over_up) %>% as_tibble() %>% mutate(FDR = pv.fdr[1:nrow(summary(Over_up) %>% as_tibble())]) %>% dplyr::select(GOCCID,FDR,Term,Size) %>% filter(FDR<0.05) %>% return()
}
#Ortholog list
orth_list<-readRDS("./RDS/large_fish_tree_all_orders.rds")
orth_list<-orth_list %>% mutate(orths = str_remove(orth_list$orths,"..$"))
non_spuroius_conv<-read_csv("Datasets/DatasetS0_csv_files/Non_spurious_conv.csv")
GO_enrich(orth_list %>% filter(Orthogroup %in% non_spuroius_conv$Orthogroup) %>% pull(orths)) %>% saveRDS("./RDS/tru_conv_GO_CC.rds")
## GO plot
library(ggforce)
go_plot<-function(.data,name){
GOenrich<-.data %>% arrange(desc(FDR)) %>% head(118)
ggplot(GOenrich,aes(x = 1-log10(FDR),
y = as.factor(Term),
size = log10(Size)))+
geom_point(color = "darkgreen")+
ylab("Biological Process")+
theme_light()->go_plot
ggplot2::ggsave(paste("./Figures/",name,"_GO_enrich.png"),go_plot,width = 5,height = 10, units = "in",scale = 1.5,limitsize
= F,device = "png")
}
go_plot(readRDS("./RDS/tru_conv_GO_BP.rds"),name = "Non_spurious_convergence")GO term enrichment plot
knitr::include_graphics("./Figures/Non_spurious_convergence_GO_enrich.png")
GO terms and ecological characters
In this section I check whether is any relationship between convergent genes with specific GO terns and ecological characters obtained from FishBase. This will provide information regarding potential biological functions and ecological relevance of the convergent genes.
Neither chisq test, nor the Fisher’s exact test showed evidence for
any significant relationships between GO terms and ecological
characters. This is likely due to low statistical power.
Users can run the test to confirm. For the sake of brvity I have not
inlcuded this output.
d<-readRDS("./RDS/tru_conv_GO_CC.rds")
orth_list<-readRDS("./RDS/large_fish_tree_all_orders.rds")
orth_list<-orth_list %>% mutate(orths = str_remove(orth_list$orths,"..$"))
GO_filter<-left_join(annot %>% filter(GO_id =="GO:0034605") %>% dplyr::rename(orths = gene),
orth_list, by = "orths")
GO_cont<-left_join(tax_info_conv,GO_filter,by = "Orthogroup") %>% distinct(Protein_id, .keep_all = T) %>% dplyr::select(GO_id, Salinity, EcosystemType, Climate, FoodI) %>% mutate(GO_id = ifelse(is.na(GO_id),"other",GO_id)) %>% na.omit()
fisher.test(table(GO = GO_cont$GO_id, test = GO_cont$Salinity))$p.value
chisq.test(table(GO = GO_cont$GO_id, test = GO_cont$Climate),correct = F)
barplot(table(GO = GO_cont$GO_id, test = GO_cont$Salinity))
orth_list<-readRDS("./RDS/large_fish_tree_all_orders.rds")
orth_list<-orth_list %>% mutate(orths = str_remove(orth_list$orths,"..$"))
GO_eco_test<-function(GO_term){
# d<-readRDS("./RDS/tru_conv_GO_BP.rds")
#annot %>% filter(GO_id == GO_term)
perform_test<-function(df){
test1<-chisq.test(table(GO = df$GO_id, test = df$Climate),correct = F,simulate.p.value = T,B = 2000)
test2<-chisq.test(table(GO = df$GO_id, test = df$Salinity),correct = F,simulate.p.value = T,B = 2000)
test3<-chisq.test(table(GO = df$GO_id, test = df$EcosystemType),correct = F,simulate.p.value = T,B = 2000)
test4<-chisq.test(table(GO = df$GO_id, test = df$FoodI),correct = F,simulate.p.value = T,B = 2000)
pvals<-list(test1$p.value,test2$p.value,test3$p.value)
return(pvals)
}
GO_filter<-left_join(annot %>% filter(GO_id == GO_term) %>% dplyr::rename(orths = gene),
orth_list, by = "orths")
GO_cont<-left_join(tax_info_conv,GO_filter,by = "Orthogroup",relationship = "many-to-many") %>% distinct(Protein_id, .keep_all = T) %>% dplyr::select(GO_id, Salinity, EcosystemType, Climate) %>% mutate(GO_id = ifelse(is.na(GO_id),"other",GO_id)) %>% na.omit()
#This step checks whether there are GO terms that can be directly mapped to the tax_info data and not just large indirect mother terms
if (length(GO_cont %>% summarise(n=n(),.by = GO_id) %>% pull(GO_id)) > 1) {
return(perform_test(GO_cont))
} else {
return(NULL)
}
}
bp_GO %>% pull(GOBPID)->GO_eco_test_list
purrr::map(GO_eco_test_list,GO_eco_test)->res
purrr::list_flatten(res) %>% p.adjust(method = "BH") %>% view()Session info
sessionInfo()## R version 4.4.0 (2024-04-24)
## Platform: aarch64-apple-darwin20
## Running under: macOS Sonoma 14.4.1
##
## Matrix products: default
## BLAS: /Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/lib/libRblas.0.dylib
## LAPACK: /Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/lib/libRlapack.dylib; LAPACK version 3.12.0
##
## locale:
## [1] en_US.UTF-8/en_US.UTF-8/en_US.UTF-8/C/en_US.UTF-8/en_US.UTF-8
##
## time zone: Europe/Zurich
## tzcode source: internal
##
## attached base packages:
## [1] stats4 stats graphics grDevices utils datasets methods
## [8] base
##
## other attached packages:
## [1] coin_1.4-3 survival_3.7-0
## [3] rstatix_0.7.2 ggpubr_0.6.0
## [5] rfishbase_5.0.0 DESeq2_1.44.0
## [7] SummarizedExperiment_1.34.0 MatrixGenerics_1.16.0
## [9] matrixStats_1.4.0 GenomicRanges_1.56.1
## [11] GenomeInfoDb_1.40.1 edgeR_4.2.1
## [13] limma_3.60.4 BgeeDB_2.30.1
## [15] topGO_2.56.0 SparseM_1.84-2
## [17] GO.db_3.19.1 AnnotationDbi_1.66.0
## [19] IRanges_2.38.1 S4Vectors_0.42.1
## [21] Biobase_2.64.0 graph_1.82.0
## [23] BiocGenerics_0.50.0 RColorBrewer_1.1-3
## [25] ggtree_3.12.0 phytools_2.3-0
## [27] maps_3.4.2 ape_5.8
## [29] kableExtra_1.4.0 lubridate_1.9.3
## [31] forcats_1.0.0 stringr_1.5.1
## [33] dplyr_1.1.4 purrr_1.0.2
## [35] readr_2.1.5 tidyr_1.3.1
## [37] tibble_3.2.1 ggplot2_3.5.1
## [39] tidyverse_2.0.0
##
## loaded via a namespace (and not attached):
## [1] splines_4.4.0 bitops_1.0-8 ggplotify_0.1.2
## [4] R.oo_1.26.0 preprocessCore_1.66.0 lifecycle_1.0.4
## [7] doParallel_1.0.17 lattice_0.22-6 vroom_1.6.5
## [10] MASS_7.3-61 backports_1.5.0 magrittr_2.0.3
## [13] sass_0.4.9 rmarkdown_2.28 jquerylib_0.1.4
## [16] yaml_2.3.10 cowplot_1.1.3 DBI_1.2.3
## [19] multcomp_1.4-26 abind_1.4-5 zlibbioc_1.50.0
## [22] expm_1.0-0 quadprog_1.5-8 R.utils_2.12.3
## [25] RCurl_1.98-1.16 TH.data_1.1-2 yulab.utils_0.1.7
## [28] sandwich_3.1-0 GenomeInfoDbData_1.2.12 tidytree_0.4.6
## [31] svglite_2.1.3 codetools_0.2-20 DelayedArray_0.30.1
## [34] xml2_1.3.6 tidyselect_1.2.1 aplot_0.2.3
## [37] UCSC.utils_1.0.0 farver_2.1.2 duckdb_1.0.0-2
## [40] jsonlite_1.8.8 iterators_1.0.14 systemfonts_1.1.0
## [43] foreach_1.5.2 tools_4.4.0 treeio_1.28.0
## [46] Rcpp_1.0.13 glue_1.7.0 gridExtra_2.3
## [49] mnormt_2.1.1 SparseArray_1.4.8 mgcv_1.9-1
## [52] xfun_0.47 withr_3.0.1 numDeriv_2016.8-1.1
## [55] combinat_0.0-8 fastmap_1.2.0 fansi_1.0.6
## [58] digest_0.6.37 timechange_0.3.0 R6_2.5.1
## [61] gridGraphics_0.5-1 colorspace_2.1-1 RSQLite_2.3.7
## [64] R.methodsS3_1.8.2 utf8_1.2.4 generics_0.1.3
## [67] ggsci_3.2.0 data.table_1.16.0 clusterGeneration_1.3.8
## [70] httr_1.4.7 S4Arrays_1.4.1 scatterplot3d_0.3-44
## [73] pkgconfig_2.0.3 gtable_0.3.5 modeltools_0.2-23
## [76] blob_1.2.4 XVector_0.44.0 kldtools_1.2
## [79] htmltools_0.5.8.1 carData_3.0-5 scales_1.3.0
## [82] png_0.1-8 ggfun_0.1.6 knitr_1.48
## [85] rstudioapi_0.16.0 tzdb_0.4.0 reshape2_1.4.4
## [88] coda_0.19-4.1 nlme_3.1-166 curl_5.2.2
## [91] duckdbfs_0.0.7 zoo_1.8-12 cachem_1.1.0
## [94] DEoptim_2.2-8 libcoin_1.0-10 parallel_4.4.0
## [97] pillar_1.9.0 grid_4.4.0 vctrs_0.6.5
## [100] car_3.1-2 dbplyr_2.5.0 evaluate_0.24.0
## [103] mvtnorm_1.3-1 cli_3.6.3 locfit_1.5-9.10
## [106] compiler_4.4.0 rlang_1.1.4 crayon_1.5.3
## [109] ggsignif_0.6.4 labeling_0.4.3 plyr_1.8.9
## [112] fs_1.6.4 stringi_1.8.4 viridisLite_0.4.2
## [115] BiocParallel_1.38.0 munsell_0.5.1 Biostrings_2.72.1
## [118] lazyeval_0.2.2 optimParallel_1.0-2 Matrix_1.7-0
## [121] hms_1.1.3 patchwork_1.2.0 bit64_4.0.5
## [124] KEGGREST_1.44.1 statmod_1.5.0 highr_0.11
## [127] igraph_2.0.3 broom_1.0.6 memoise_2.0.1
## [130] bslib_0.8.0 phangorn_2.11.1 fastmatch_1.1-4
## [133] bit_4.0.5Gene expression analysis of single-cell RNA seq of Danio rerio embryonic development
To understand the role of the convergent genes during development we obtained single-cell RNAseq data from the Zebrahub consortium (https://zebrahub.ds.czbiohub.org/). By studying gene expression dynamics in different cell types across embryonic development, we can get insights into the role of these genes during development.
Load and normalise the data
The data has already undergone processing, QC, clustering, and dimentionality reduction by Zebrahub. I normalise the expression counts for gene expression quantification for each developmental stage. Please obtain the original data from the Zebrahub repository and run the following code to obtain all the processed data.
# Plots to visualise
library(dittoSeq)
cols<-randomcoloR::randomColor(50,luminosity = "dark")
#Run this on all the processed h5ad files except the complete atlas
norm_and_umap<-function(stage){
zhub_dat<-readH5AD(paste0("./Datasets/Zebrahub_singlecell/Processed_objects/zf_atlas_",stage,"_v4_release.h5ad"))
cell_info<-as.data.frame(colData(zhub_dat))
g1<-ggpubr::ggviolin(cell_info,x = 'fish',y = 'total_counts',fill = 'fish',color = 'white',palette = 'npg',xlab = "Fish ID",ylab = "Total counts")
g2<-ggpubr::ggviolin(cell_info,x = 'fish',y = 'total_counts_mt',fill = 'fish',color = 'white',palette = 'npg',xlab = "Fish ID",ylab = "Total mitochondrial counts")
g3<-ggpubr::ggviolin(cell_info,x = 'fish',y = 'total_counts_nc',fill = 'fish',color = 'white',palette = 'npg',xlab = "Fish ID",ylab = "Total 'NC' counts")
viz<-ggpubr::ggarrange(g1,g2,g3,ncol = 1,nrow = 3,common.legend = T)
viz %>% ggsave(filename = paste0("./Plots/Zhub/",stage,"_violin.pdf"),device = "pdf",height = 10,width = 8,units = "in")
#Log Normalise
zhub_dat<-computeSumFactors(zhub_dat,clusters = zhub_dat$timepoint_cluster)
zhub_dat<-logNormCounts(zhub_dat,transform='log')
zhub_dat %>% saveRDS(paste0("./Datasets/RDS/zhub_",stage,"_log.rds")) #I provide the RDS file for the entire embryonic development phases. The 'full' dataset was used in all subsequent analysis
umap_plot<-plotReducedDim(zhub_dat,dimred = 'X_umap',
colour_by = 'zebrafish_anatomy_ontology_class',
text_by = 'zebrafish_anatomy_ontology_class')+
xlab("UMAP1")+
ylab("UMAP2")+
scale_color_manual(values = cols)
ggsave(umap_plot,filename = paste0("./Plots/Zhub/",stage,"_UMAP.svg"),device = "svg",height = 8,width = 15,units = "in")
}
zlist<-c("2dpf","3dpf","5dpf","10dpf","10hpf","12hpf","14hpf","16hpf","19hpf","24hpf","24hpf","full")
purrr::map(zlist,norm_and_umap)Plot the convergent genes
From the heatmap we observe the presence of three distinct groups. 1)
Set of genes with ubiquitous expression throughout embryonic development
and across multiple cell types. These included genes such as
adam17a (ADAM metallopeptidase 17a; OG0003642), eef2b
(eukaryotic translation elongation factor 2b; OG0001781) and
eef1a1|1 (eukaryotic translation elongation factor 1 alpha 1;
OG0000135).
2) The second group comprised genes expressed throughout embryonic
development but in specific cell types. Examples include
alcam-a (activated leukocyte cell adhesion molecule a;
OG0001823) and pax3a (paired box 3a; OG0000460).
3) The third group of genes were predominantly expressed late in
embryonic development. Genes in this group, such as slc22a21
(OG0002545) and hbae5 (OG0000107), were predominantly expressed
between 24hpf and 10dpf
library(dittoSeq)
#Load tissue-specific convergent genes data
#Users can use this to explore the data. I have not used information of tissue specificity to separate genes. Instead I focus on all the convergent genes in zebrafish ('danio_conv').
brain<-read_csv("./Datasets/DatasetS0_csv_files/Brain_specifc_convergent_Danio_genes.csv")
eye<-read_csv("./Datasets/DatasetS0_csv_files/Eye_specifc_convergent_Danio_genes.csv")
heart<-read_csv("./Datasets/DatasetS0_csv_files/Heart_specifc_convergent_Danio_genes.csv")
liver<-read_csv("./Datasets/DatasetS0_csv_files/Liver_specifc_convergent_Danio_genes.csv")
muscle<-read_csv("./Datasets/DatasetS0_csv_files/Muscle_specifc_convergent_Danio_genes.csv")
skin<-read_csv("./Datasets/DatasetS0_csv_files/Skin_specifc_convergent_Danio_genes.csv")
ovary<-read_csv("./Datasets/DatasetS0_csv_files/Ovary_specifc_convergent_Danio_genes.csv")
testis<-read_csv("./Datasets/DatasetS0_csv_files/Testis_specifc_convergent_Danio_genes.csv")
#Plot timepoint heatmap
time_heatmap<-function(tissue){
#Load normalised data
zhub_dat<-readRDS("./RDS/zhub_full_log.rds")
danio_conv<-read_csv("./Datasets/DatasetS0_csv_files/Danio_rerio_convergent_genes.csv")
#You can decide specific genes you want to plot. I used this to make the UMAPs for the sparing and ubiquitiously expressed genes. Check in Figures/Zhub
#for_plot<-c("gstt1b","pkp3b","pkp3a","gstt1a","mybpc2b","vtg1","adamts12","postnb","myom1a","mrc1a","hbae1.1","hbae1.3","myom1b","hbae3","vtg2","b3gnt3.4","adprhl1","adprh","hbaa1","hbae5","arf4a","hbaa2","pax7b","pax7a","mrc1b","slc22a21","adam17b","mical1","vtg5","eef1a2","eef1a1a","abcg1","upp2","c7b","eef2l2","arf4b","slc47a2.1","vwa11","slc22a4","slc47a4","slc47a3","anpepb","slc22a2","slc6a19b","slc6a19a.2 ","eef1a1l2","CU234171.1","osbpl7","slc6a18","c3a.5","vwa10.2","slc47a1","svopb","acp2","tmem198b","gstt1b","pkp3b","gstt1a","asic1a","tmem198a")
rowData(zhub_dat)$marker_class <- ifelse(rownames(zhub_dat) %in% brain$`Gene name`, "brain",
ifelse(rownames(zhub_dat) %in% eye$`Gene name`, "eye",
ifelse(rownames(zhub_dat) %in% heart$`Gene name`, "heart",
ifelse(rownames(zhub_dat) %in% liver$`Gene name`, "liver",
ifelse(rownames(zhub_dat) %in% muscle$`Gene name`, "muscle",
ifelse(rownames(zhub_dat) %in% skin$`Gene name`, "skin",
ifelse(rownames(zhub_dat) %in% ovary$`Gene name`, "ovary",
ifelse(rownames(zhub_dat) %in% testis$`Gene name`, "testis",
ifelse(rownames(zhub_dat) %in% (danio_conv %>% distinct(`Gene name`))$`Gene name`, "Danio_all",
"other")))))))))
timepoint_mean <- try(aggregateAcrossCells(as(zhub_dat, "SingleCellExperiment"),
ids = zhub_dat$timepoint,
statistics = "mean",
use.assay.type = "logcounts",
subset.row = rownames(zhub_dat)[rowData(zhub_dat)$marker_class == tissue]))
dheat<-try(dittoHeatmap(timepoint_mean,
assay = "logcounts",
cluster_cols = FALSE,
scaled.to.max = TRUE,
heatmap.colors.max.scaled = viridis::viridis(100,direction = -1),
annot.by = "timepoint"))
ggsave(plot = dheat,filename = paste0("./Figures/Zhub/Heatmap_genes_",tissue,".pdf"),device = "pdf",width = 5.2, height = 21.5,units = "in",limitsize = F)
}
time_heatmap("Danio_all")knitr::include_graphics("./Figures/Zhub/Heatmap_genes_Danio_all.pdf")Timepoint-tissue UMAP
Users can use the following code to UMAPs for each specific timepoint. I use this code to genrate the UPAMs included in figure 2 and 3 of the main text. You can use it to make an individual gene plots or a plot with multiple genes. The full plots are avalilable in Dataset/DatasetS9_Zebrahub_singlecell/Figures
#Use this function to make the gene expression UMAPs for tissue-specific convergent genes at different developmental timepoints Refer to the heatmap above to select timepoints and tissue.
umap_gene_exp<-function(stage,tissue) {
zhub_dat<-readRDS(paste0("./RDS/zhub_",stage,"_log.rds"))
danio_conv<-read_csv("./Datasets/DatasetS0_csv_files/Danio_rerio_convergent_genes.csv")
#Again you can use a set of genes or all the genes
#We show these in the example below. Plots for all genes at all stages is in Figures/Zhub
#for_plot<-c("adam17b","adamts12","gstt1a","gstt1b","gstt1b","pax7a","pax7b","pkp3a","pkp3b","osbpl7")
rowData(zhub_dat)$marker_class <- ifelse(rownames(zhub_dat) %in% brain$`Gene name`, "brain",
ifelse(rownames(zhub_dat) %in% eye$`Gene name`, "eye",
ifelse(rownames(zhub_dat) %in% heart$`Gene name`, "heart",
ifelse(rownames(zhub_dat) %in% liver$`Gene name`, "liver",
ifelse(rownames(zhub_dat) %in% muscle$`Gene name`, "muscle",
ifelse(rownames(zhub_dat) %in% skin$`Gene name`, "skin",
ifelse(rownames(zhub_dat) %in% ovary$`Gene name`, "ovary",
ifelse(rownames(zhub_dat) %in% testis$`Gene name`, "testis",
ifelse(rownames(zhub_dat) %in% (danio_conv$`Gene name`), "all_conv_genes",
"other")))))))))
# UMAP colored by expression for all markers - plotReducedDim
plot_list <- lapply(rownames(zhub_dat)[rowData(zhub_dat)$marker_class == tissue], function(x){
p <- plotReducedDim(zhub_dat,
dimred = 'X_umap',
colour_by = x,
by_exprs_values = "logcounts",
point_size = 0.4)+
scale_colour_viridis_c(option = "D",direction = -1)+
xlab("UMAP1")+
ylab("UMAP2")+
labs(color = x)+
theme(axis.text = element_blank(),
axis.ticks = element_blank())
return(p)
})
#Use this to make a single plot with all the genes
cowplot::plot_grid(plotlist = plot_list) %>% ggsave(filename = paste0("./Figures/Zhub/gene_UMAP_",stage,"_",tissue,".pdf"),device = "pdf",width = 50, height = 30, units = "in", limitsize = F)
#save individual plots
#names(plot_list)<-rownames(zhub_dat)[rowData(zhub_dat)$marker_class == tissue]
#for (name in names(plot_list)) {
# plot_file_name <- paste0(name, ".pdf") # Create file name
# ggsave(filename = paste0("./Plots/Zhub/individual_gene_plots/",stage,"_",name,"_",tissue,".pdf"),
# plot = plot_list[[name]],
# device = "pdf",
# width = 4, height = 3, units = "in", limitsize = F)
# }
}
umap_gene_exp(stage = "10hpf",tissue = "all_conv_genes")
umap_gene_exp(stage = "12hpf",tissue = "all_conv_genes")
umap_gene_exp(stage = "14hpf",tissue = "all_conv_genes")
umap_gene_exp(stage = "16hpf",tissue = "all_conv_genes")
umap_gene_exp(stage = "19hpf",tissue = "all_conv_genes")
umap_gene_exp(stage = "24hpf",tissue = "all_conv_genes")
umap_gene_exp(stage = "3dpf",tissue = "all_conv_genes")
umap_gene_exp(stage = "5dpf",tissue = "all_conv_genes")
umap_gene_exp(stage = "10dpf",tissue = "all_conv_genes")Summary of convergent amino acid substitutions
In this section I functionally characterise the different convergent
amino acid substitutions we observed.
Checking the BLOSUM62 scores between the convergent substitution and
other non-convergent substitutions will provide insight into the
potential functional nature of the convergent sites. If the convergent
sites are associated with functioning of the protein then we would
expect substitutions on these sites to have lower BLOSUM62 score as
compared to the non convergent ones. On an average we do observe that
convergent sites have a less score than other non-convergent
substitutions occurring in the same protein. When looking at the changes
in specific physiochemical properties of amino acids, we found that most
of the changes in amino acid properties occur during the convergent
substitutions. To determine the changes in amino acid properties I
compared the values for properties of the ancestral amino acid and
compared it with the values of extant amino acids caused by the
convergent substitutions. We compared 17 different amino acid properties
and found that 95% of the convergent orthogroups (85 out of 89) had
significant changes (two-sided Wilcoxon rank sum test FDR < 0.05) in
at least one of the 17 physicochemical properties analysed. I took all
the significant changes between ancestral and extant amino acid and
looked at the number caused by convergent and non-convergent
substitutions. Most of the changes resulted from convergent
substitutions.
#Get amino acid properties
data("AAdata")
rbind(
AAdata$zScales$Z1 %>% as_tibble() %>% mutate(property="Lipophilicity") %>%
mutate(amino_acid= c("A","R","N","D","C","Q","E","G","H","I","L","K","M","F","P","S","T","W","Y","V")),
AAdata$zScales$Z2 %>% as_tibble() %>% mutate(property="Steric") %>%
mutate(amino_acid= c("A","R","N","D","C","Q","E","G","H","I","L","K","M","F","P","S","T","W","Y","V")),
AAdata$zScales$Z3 %>% as_tibble() %>% mutate(property="Polarity") %>%
mutate(amino_acid= c("A","R","N","D","C","Q","E","G","H","I","L","K","M","F","P","S","T","W","Y","V")),
AAdata$kideraFactors$KF1 %>% as_tibble() %>% mutate(property="Helix_bend_preference") %>%
mutate(amino_acid= c("A","R","N","D","C","Q","E","G","H","I","L","K","M","F","P","S","T","W","Y","V")),
AAdata$kideraFactors$KF2 %>% as_tibble() %>% mutate(property="Side-chain_size") %>%
mutate(amino_acid= c("A","R","N","D","C","Q","E","G","H","I","L","K","M","F","P","S","T","W","Y","V")),
AAdata$kideraFactors$KF3 %>% as_tibble() %>% mutate(property="Extended_structure_preference") %>%
mutate(amino_acid= c("A","R","N","D","C","Q","E","G","H","I","L","K","M","F","P","S","T","W","Y","V")),
AAdata$kideraFactors$KF4 %>% as_tibble() %>% mutate(property="Hydrophobicity") %>%
mutate(amino_acid= c("A","R","N","D","C","Q","E","G","H","I","L","K","M","F","P","S","T","W","Y","V")),
AAdata$kideraFactors$KF5 %>% as_tibble() %>% mutate(property="Double-bend_preference") %>%
mutate(amino_acid= c("A","R","N","D","C","Q","E","G","H","I","L","K","M","F","P","S","T","W","Y","V")),
AAdata$kideraFactors$KF6 %>% as_tibble() %>% mutate(property="Partial_specific_volume") %>%
mutate(amino_acid= c("A","R","N","D","C","Q","E","G","H","I","L","K","M","F","P","S","T","W","Y","V")),
AAdata$kideraFactors$KF7 %>% as_tibble() %>% mutate(property="Flat_extended_preference") %>%
mutate(amino_acid= c("A","R","N","D","C","Q","E","G","H","I","L","K","M","F","P","S","T","W","Y","V")),
AAdata$kideraFactors$KF8 %>% as_tibble() %>% mutate(property="Occurence_in_alpha_region") %>%
mutate(amino_acid= c("A","R","N","D","C","Q","E","G","H","I","L","K","M","F","P","S","T","W","Y","V")),
AAdata$kideraFactors$KF10 %>% as_tibble() %>% mutate(property="Surr_hydrophobicity") %>%
mutate(amino_acid= c("A","R","N","D","C","Q","E","G","H","I","L","K","M","F","P","S","T","W","Y","V")),
AAdata$FASGAI$F2 %>% as_tibble() %>% mutate(property="Alpha_turn_prop") %>%
mutate(amino_acid= c("A","R","N","D","C","Q","E","G","H","I","L","K","M","F","P","S","T","W","Y","V")),
AAdata$FASGAI$F3 %>% as_tibble() %>% mutate(property="Bulk_prop") %>%
mutate(amino_acid= c("A","R","N","D","C","Q","E","G","H","I","L","K","M","F","P","S","T","W","Y","V")),
AAdata$FASGAI$F4 %>% as_tibble() %>% mutate(property="Compositional_characters") %>%
mutate(amino_acid= c("A","R","N","D","C","Q","E","G","H","I","L","K","M","F","P","S","T","W","Y","V")),
AAdata$FASGAI$F5 %>% as_tibble() %>% mutate(property="Local_flex") %>%
mutate(amino_acid= c("A","R","N","D","C","Q","E","G","H","I","L","K","M","F","P","S","T","W","Y","V")),
AAdata$FASGAI$F6 %>% as_tibble() %>% mutate(property="Electronic_prop") %>%
mutate(amino_acid= c("A","R","N","D","C","Q","E","G","H","I","L","K","M","F","P","S","T","W","Y","V"))
)->aa_properties
#Distribution of aa physiochemical properties
aa_properties %>% ggplot(aes(x=value))+
facet_grid(cols=vars(property))+
geom_density(fill="green4",alpha=0.6)+
theme_bw()
sub_Matix_score<-function(id){
#Prepare csusbt site output
files<-list.files(path = paste0("./Datasets/DatasetS6_Non_spurious_convergence"), pattern = paste0(id,".tsv"),
full.names = TRUE, recursive = TRUE)
#read in file
dat<-read_tsv(files[1]) %>% dplyr::select(OCNany2spe, OCNany2any, contains(c("aa", "codon_site_pdb"))) %>%
filter(OCNany2any >0) %>% arrange(desc(OCNany2spe))
#get branches info
branches<-data.frame(branches=
dat %>% dplyr::select(matches("^aa(?!.*(anc|hydrophobicity)).*$", perl = T)) %>%
dplyr::select(-last_col()) %>% colnames())
branches<-branches %>% filter(str_count(branches, "_") == 1)
#Special selecting function
select_grouped_columns <- function(data, prefix) {
data %>%
dplyr::select(OCNany2spe, OCNany2any, matches(paste0("^", prefix, "(?:_anc)?(?:_hydrophobicity)?$")))
}
make_aa_sub_dat<-function(branches){
select_grouped_columns(dat, branches) %>% mutate(type_of_sub=case_when(OCNany2spe >= 0.5 ~ "Convergent", .default = "Non-convergent")) %>%
dplyr::select(3,4,type_of_sub) %>% dplyr::rename("extant"=1, "anc"=2) %>% mutate(branch.num=branches)->aa_subs_data
return(aa_subs_data)
}
#data frame with ancestral to extant aa substitution
purrr::map(branches$branches, make_aa_sub_dat) %>% list_rbind() %>% drop_na()->aa_subs_data
#Get the Blosum matrix
data(BLOSUM62)
aa_subs_data %>% rowwise() %>% mutate(sub_score = BLOSUM62[anc, extant]) %>% ungroup() %>% mutate(pdb_id=id) ->score
#Make data frame with BLOSUM scores and aa properties
rbind(
left_join(
score, aa_properties %>% filter(property=="Lipophilicity") %>% dplyr::rename("extant"="amino_acid"), by ="extant") %>%
left_join(aa_properties %>% filter(property=="Lipophilicity") %>% dplyr::rename("anc"="amino_acid"), by ="anc") %>%
dplyr::rename("extant.value"="value.x", "anc.value"="value.y", "property"="property.x") %>% dplyr::select(-c(property.y)),
left_join(
score, aa_properties %>% filter(property=="Steric") %>% dplyr::rename("extant"="amino_acid"), by ="extant") %>%
left_join(aa_properties %>% filter(property=="Steric") %>% dplyr::rename("anc"="amino_acid"), by ="anc") %>%
dplyr::rename("extant.value"="value.x", "anc.value"="value.y", "property"="property.x") %>% dplyr::select(-c(property.y)),
left_join(
score, aa_properties %>% filter(property=="Polarity") %>% dplyr::rename("extant"="amino_acid"), by ="extant") %>%
left_join(aa_properties %>% filter(property=="Polarity") %>% dplyr::rename("anc"="amino_acid"), by ="anc") %>%
dplyr::rename("extant.value"="value.x", "anc.value"="value.y", "property"="property.x") %>% dplyr::select(-c(property.y)),
left_join(
score, aa_properties %>% filter(property=="Helix_bend_preference") %>% dplyr::rename("extant"="amino_acid"), by ="extant") %>%
left_join(aa_properties %>% filter(property=="Helix_bend_preference") %>% dplyr::rename("anc"="amino_acid"), by ="anc") %>%
dplyr::rename("extant.value"="value.x", "anc.value"="value.y", "property"="property.x") %>% dplyr::select(-c(property.y)),
left_join(
score, aa_properties %>% filter(property=="Side-chain_size") %>% dplyr::rename("extant"="amino_acid"), by ="extant") %>%
left_join(aa_properties %>% filter(property=="Side-chain_size") %>% dplyr::rename("anc"="amino_acid"), by ="anc") %>%
dplyr::rename("extant.value"="value.x", "anc.value"="value.y", "property"="property.x") %>% dplyr::select(-c(property.y)),
left_join(
score, aa_properties %>% filter(property=="Extended_structure_preference") %>% dplyr::rename("extant"="amino_acid"), by ="extant") %>%
left_join(aa_properties %>% filter(property=="Extended_structure_preference") %>% dplyr::rename("anc"="amino_acid"), by ="anc") %>%
dplyr::rename("extant.value"="value.x", "anc.value"="value.y", "property"="property.x") %>% dplyr::select(-c(property.y)),
left_join(
score, aa_properties %>% filter(property=="Hydrophobicity") %>% dplyr::rename("extant"="amino_acid"), by ="extant") %>%
left_join(aa_properties %>% filter(property=="Hydrophobicity") %>% dplyr::rename("anc"="amino_acid"), by ="anc") %>%
dplyr::rename("extant.value"="value.x", "anc.value"="value.y", "property"="property.x") %>% dplyr::select(-c(property.y)),
left_join(
score, aa_properties %>% filter(property=="Double-bend_preference") %>% dplyr::rename("extant"="amino_acid"), by ="extant") %>%
left_join(aa_properties %>% filter(property=="Double-bend_preference") %>% dplyr::rename("anc"="amino_acid"), by ="anc") %>%
dplyr::rename("extant.value"="value.x", "anc.value"="value.y", "property"="property.x") %>% dplyr::select(-c(property.y)),
left_join(
score, aa_properties %>% filter(property=="Partial_specific_volume") %>% dplyr::rename("extant"="amino_acid"), by ="extant") %>%
left_join(aa_properties %>% filter(property=="Partial_specific_volume") %>% dplyr::rename("anc"="amino_acid"), by ="anc") %>%
dplyr::rename("extant.value"="value.x", "anc.value"="value.y", "property"="property.x") %>% dplyr::select(-c(property.y)),
left_join(
score, aa_properties %>% filter(property=="Flat_extended_preference") %>% dplyr::rename("extant"="amino_acid"), by ="extant") %>%
left_join(aa_properties %>% filter(property=="Flat_extended_preference") %>% dplyr::rename("anc"="amino_acid"), by ="anc") %>%
dplyr::rename("extant.value"="value.x", "anc.value"="value.y", "property"="property.x") %>% dplyr::select(-c(property.y)),
left_join(
score, aa_properties %>% filter(property=="Occurence_in_alpha_region") %>% dplyr::rename("extant"="amino_acid"), by ="extant") %>%
left_join(aa_properties %>% filter(property=="Occurence_in_alpha_region") %>% dplyr::rename("anc"="amino_acid"), by ="anc") %>%
dplyr::rename("extant.value"="value.x", "anc.value"="value.y", "property"="property.x") %>% dplyr::select(-c(property.y)),
left_join(
score, aa_properties %>% filter(property=="Surr_hydrophobicity") %>% dplyr::rename("extant"="amino_acid"), by ="extant") %>%
left_join(aa_properties %>% filter(property=="Surr_hydrophobicity") %>% dplyr::rename("anc"="amino_acid"), by ="anc") %>%
dplyr::rename("extant.value"="value.x", "anc.value"="value.y", "property"="property.x") %>% dplyr::select(-c(property.y)),
left_join(
score, aa_properties %>% filter(property=="Alpha_turn_prop") %>% dplyr::rename("extant"="amino_acid"), by ="extant") %>%
left_join(aa_properties %>% filter(property=="Alpha_turn_prop") %>% dplyr::rename("anc"="amino_acid"), by ="anc") %>%
dplyr::rename("extant.value"="value.x", "anc.value"="value.y", "property"="property.x") %>% dplyr::select(-c(property.y)),
left_join(
score, aa_properties %>% filter(property=="Bulk_prop") %>% dplyr::rename("extant"="amino_acid"), by ="extant") %>%
left_join(aa_properties %>% filter(property=="Bulk_prop") %>% dplyr::rename("anc"="amino_acid"), by ="anc") %>%
dplyr::rename("extant.value"="value.x", "anc.value"="value.y", "property"="property.x") %>% dplyr::select(-c(property.y)),
left_join(
score, aa_properties %>% filter(property=="Compositional_characters") %>% dplyr::rename("extant"="amino_acid"), by ="extant") %>%
left_join(aa_properties %>% filter(property=="Compositional_characters") %>% dplyr::rename("anc"="amino_acid"), by ="anc") %>%
dplyr::rename("extant.value"="value.x", "anc.value"="value.y", "property"="property.x") %>% dplyr::select(-c(property.y)),
left_join(
score, aa_properties %>% filter(property=="Local_flex") %>% dplyr::rename("extant"="amino_acid"), by ="extant") %>%
left_join(aa_properties %>% filter(property=="Local_flex") %>% dplyr::rename("anc"="amino_acid"), by ="anc") %>%
dplyr::rename("extant.value"="value.x", "anc.value"="value.y", "property"="property.x") %>% dplyr::select(-c(property.y)),
left_join(
score, aa_properties %>% filter(property=="Electronic_prop") %>% dplyr::rename("extant"="amino_acid"), by ="extant") %>%
left_join(aa_properties %>% filter(property=="Electronic_prop") %>% dplyr::rename("anc"="amino_acid"), by ="anc") %>%
dplyr::rename("extant.value"="value.x", "anc.value"="value.y", "property"="property.x") %>% dplyr::select(-c(property.y))
)->scores_and_properties
#Data frame with adjusted Wilcox test pvalues
#Convergent
scores_and_properties %>% filter(type_of_sub=="Convergent") %>%
summarise(wil_pval=p.adjust(wilcox.test(x= extant.value,y=anc.value,exact=T)$p.value, method = "BH"),
.by = c(property)) %>%
mutate(pdb_id=id)->peptides_wil_out_conv
#Non-convergent
scores_and_properties %>% filter(type_of_sub=="Non-convergent") %>%
summarise(wil_pval=p.adjust(wilcox.test(x= extant.value,y=anc.value,exact=T)$p.value, method = "BH"),
.by = c(property)) %>%
mutate(pdb_id=id)->peptides_wil_out_nc
#Plot section
make_boxplot_list<-function(property_type){
scores_and_properties %>% filter(type_of_sub=="Convergent", property==property_type) %>%
dplyr::select(type_of_sub,branch.num, extant.value,anc.value,property) %>%
pivot_longer(cols = c(extant.value,anc.value)) %>%
ggplot(aes(y=value, x=name, fill=name))+
facet_grid(rows=vars(branch.num))+
geom_boxplot(outliers = F)+
geom_quasirandom(shape=21, size=2.5,color="black", alpha=0.7)+
scale_fill_manual(values = c("#1AAEC0","#EA5B15"))+
xlab("Sequence type")+
labs(subtitle = paste0(property_type,"\nWilcoxon p-value: ",
peptides_wil_out_conv %>% filter(property==property_type) %>%
pull(wil_pval) %>% signif(digits = 4)))+
theme_bw()+theme(axis.text.x = element_blank(),
axis.ticks.x = element_blank())->p
return(p)
}
map(as.list(peptides_wil_out_conv %>% distinct(property) %>% pull()),
make_boxplot_list)->bp_list
library(patchwork)
wrap_plots(bp_list,guides = "collect",widths = 2) %>% ggsave(filename = paste0(id,".pdf"),
path = "./Figures/Properties_will_test/",
device = "pdf",
width = 10, height = 15, units = "in", scale = 1.5)
#return(score)
#return(combined_plots)
#return(scores_and_properties)
return(rbind(peptides_wil_out_conv %>% mutate(state="Convergent"),
peptides_wil_out_nc %>% mutate(state="Non-convergent")))
}
#Use this to skip any error
poss_sub_Matix_score = possibly(.f = sub_Matix_score)
#For the BLOSUM matrix use return(score)
purrr::map(pdb_ids, poss_sub_Matix_score) %>% list_rbind()->score_table
#score_table %>% saveRDS("./RDS/sub_Matix_score_output_for_blosum.rds")
#Make the table
purrr::map(pdb_ids, poss_sub_Matix_score) %>% list_rbind() ->Properties_pval_output_table
#Properties_pval_output_table %>% saveRDS("./RDS/Properties_pval_output_will_test.rds")
#For direction change use return(scores_and_properties)
purrr::map(pdb_ids, poss_sub_Matix_score) %>% list_rbind()->scores_and_propertiesBLOSUM62 score
#Load table
score_table<-readRDS("./RDS/sub_Matix_score_output.rds")
#Get p-values
signif((wilcox.test(x=score_table %>% group_by(pdb_id,type_of_sub) %>% summarise(mean_score=mean(sub_score,na.rm =T), .groups = "drop") %>%
filter(type_of_sub=="Convergent") %>% pull(mean_score),
y=score_table %>% group_by(pdb_id,type_of_sub) %>% summarise(mean_score=mean(sub_score,na.rm =T), .groups = "drop") %>%
filter(type_of_sub=="Non-convergent") %>% pull(mean_score)))$p.value, digits = 1)->p
#Make plot
score_table %>% group_by(pdb_id,type_of_sub) %>% summarise(mean_score=mean(sub_score,na.rm =T), .groups = "drop") %>%
ggplot(aes(x=type_of_sub, y=mean_score, colour = type_of_sub))+
geom_boxplot()+
geom_quasirandom()+
xlab("Type of substitution")+
ylab("Mean BLOSUM62 score")+
theme_bw()+
theme(legend.position = "none")+
scale_color_manual(values = c("#EA5B15","#1AAEC0"))+
labs(subtitle = paste0("Two-sided Wilcoxon p-value: ",p))
Distribution of convergent substitutions on protein structure
Here I check whether there is any relationship between the occurrence of convergence and site features on the protein. Using a chi-sq test of independence I found that in our data, there is no relationship between protein site feature and convergence. This tells me that there isn’t a general trend for convergence to be enriched on surface residues, rather it seems specific to each protein.
prot<-read_csv("./Datasets/DatasetS0_csv_files/protein_sites/Session_pymol/combined_prots.csv") %>% filter(Localisation != "Localisation") %>% filter(Number_aa != "Number_aa") %>% filter(Name_aa != "Name_aa") %>% filter(near_lig != "near_lig") %>% filter(Secondary_Structure != "Secondary_Structure") %>% filter(convergence != "convergence") %>% filter(Localisation != "no_build") %>% filter(Secondary_Structure != "no_build")
chisq.test(table(prot$Localisation,prot$convergence),correct = F)##
## Pearson's Chi-squared test
##
## data: table(prot$Localisation, prot$convergence)
## X-squared = 0.0054778, df = 1, p-value = 0.941chisq.test(table(prot$Secondary_Structure,prot$convergence),correct = F)##
## Pearson's Chi-squared test
##
## data: table(prot$Secondary_Structure, prot$convergence)
## X-squared = 1.1428, df = 2, p-value = 0.5647Structural properties
Here I visualise the structural characteristics of the convergent
substitutions to get an sense of where on the protein structure most
sites are located.
Original data found in
Datasets/DatasetS0_csv_files/protein_sites/Session_pymol
str_dat<-tibble(surface = c("Surface","Burried"),
no = c(159,22),
n.per = round((no/sum(no))*100,digits = 1))
conf_dat<-tibble(conf = c("Helix","Sheet","Loop"),
no = c(83,33,65),
n.per = round((no/sum(no))*100,digits = 1))
labs1<-paste0(str_dat[[1]], " (", str_dat$n.per, "%)")
labs2<-paste0(conf_dat[[1]], " (", conf_dat$n.per, "%)")
g1<-ggpubr::ggbarplot(str_dat,x = "surface",y = "n.per",palette = "npg",color = "black",fill = "surface",label = labs1,xlab = "Localisation of convergnt residues on protein",ylab = "Percentage of convergent sites")
g2<-ggpubr::ggbarplot(conf_dat,x = "conf",y = "n.per",palette = "npg",color = "black",fill = "conf",label = labs2,xlab = "Localisation of convergent residues on secondary structure",ylab = "Percentage of convergent sites")
ggpubr::ggarrange(g1,g2,nrow = 2,legend = "none")
Amino acid property changes
#Load data
Properties_pval_output_table<-readRDS("./RDS/Properties_pval_output_will_test.rds")
#Make plots
Properties_pval_output_table %>%
mutate(is_sig=case_when(wil_pval < 0.05 ~ "yes", .default = "no")) %>%
filter(is_sig == "yes") %>% group_by(property, state) %>% dplyr::count(is_sig) %>% ungroup() %>%
mutate(property=reorder(property,-n)) %>% dplyr::rename("Type of substitution"="state") %>%
ggplot(aes(y=property, x=n))+
geom_col(aes(fill=`Type of substitution`), alpha=0.7, color="black",position = "dodge")+
scale_fill_manual(values = c("#EA5B15","#1AAEC0"))+
xlab("Number of significant changes\nto amino acid property")+
ylab("Physiochemical properties of amino acids")+
theme_bw()
Properties_pval_output_table %>%
mutate(is_sig=case_when(wil_pval < 0.05 ~ "yes", .default = "no")) %>%
filter(is_sig == "yes") %>% group_by(property, state) %>% dplyr::count(is_sig) %>% ungroup() %>%
mutate(property=reorder(property,-n)) %>% dplyr::rename("Type of substitution"="state") %>%
ggplot(aes(y=property, x=n))+
geom_col(aes(fill=`Type of substitution`), alpha=0.7, color="black",position = "fill")+
scale_fill_manual(values = c("#EA5B15","#1AAEC0"))+
xlab("Proportion of significant changes\nto amino acid property")+
ylab("Physiochemical properties of amino acids")+
theme_bw()
Analysing distribution of tissue specificity
In contrast to the previous analysis where we checked whether convergent genes were more tissue specific than other genes in the genome, this analysis compares the distributions of the values of the tissues-specificity index between convergent genes and all other genes. The distribution of tissue specificity of the convergent genes was significantly different compared to the background (two-sided Kolmogorov-Smirnov test P < 0.05), with the convergent genes having higher distribution at intermediate values of tissue specificity.
Setting up analysis
#Load data
skin<-orth_list %>% filter(orths %in% (readRDS("./RDS/Tau_0.8_TMM_cpm_with_log_no_combat_skin.rds")
%>% purrr::list_rbind() %>% dplyr::select(Gene.ID))$Gene.ID)
brain<-orth_list %>% filter(orths %in% (readRDS("./RDS/Tau_0.8_TMM_cpm_with_log_no_combat_brain.rds")
%>% purrr::list_rbind() %>% dplyr::select(Gene.ID))$Gene.ID)
eye<-orth_list %>% filter(orths %in% (readRDS("./RDS/Tau_0.8_TMM_cpm_with_log_no_combat_eye.rds")
%>% purrr::list_rbind() %>% dplyr::select(Gene.ID))$Gene.ID)
heart<-orth_list %>% filter(orths %in% (readRDS("./RDS/Tau_0.8_TMM_cpm_with_log_no_combat_heart.rds")
%>% purrr::list_rbind() %>% dplyr::select(Gene.ID))$Gene.ID)
liver<-orth_list %>% filter(orths %in% (readRDS("./RDS/Tau_0.8_TMM_cpm_with_log_no_combat_liver.rds")
%>% purrr::list_rbind() %>% dplyr::select(Gene.ID))$Gene.ID)
muscle<-orth_list %>% filter(orths %in% (readRDS("./RDS/Tau_0.8_TMM_cpm_with_log_no_combat_muscle.rds")
%>% purrr::list_rbind() %>% dplyr::select(Gene.ID))$Gene.ID)
ovary<-orth_list %>% filter(orths %in% (readRDS("./RDS/Tau_0.8_TMM_cpm_with_log_no_combat_ovary.rds")
%>% purrr::list_rbind() %>% dplyr::select(Gene.ID))$Gene.ID)
testis<-orth_list %>% filter(orths %in% (readRDS("./RDS/Tau_0.8_TMM_cpm_with_log_no_combat_testis.rds")
%>% purrr::list_rbind() %>% dplyr::select(Gene.ID))$Gene.ID)
#Get the orthologs that are exclusively tissue specific for each tissue
#brain
ts_list<-list(brain,eye,heart,liver,muscle,skin,ovary,testis) #change the first entry in the list when computing exclusive orthologs
brain_excl<-purrr::reduce(ts_list,anti_join, by = "Orthogroup")# %>% write_csv("./Datasets/DatasetS0_csv_files/Brain_exclusive_orths.csv")
#eye
ts_list<-list(eye,brain,heart,liver,muscle,skin,ovary,testis) #change the first entry in the list when computing exclusive orthologs
eye_excl<-purrr::reduce(ts_list,anti_join, by = "Orthogroup")# %>% write_csv("./Datasets/DatasetS0_csv_files/Eye_exclusive_orths.csv")
#heart
ts_list<-list(heart,brain,eye,liver,muscle,skin,ovary,testis) #change the first entry in the list when computing exclusive orthologs
heart_excl<-purrr::reduce(ts_list,anti_join, by = "Orthogroup")# %>% write_csv("./Datasets/DatasetS0_csv_files/Heart_exclusive_orths.csv")
#liver
ts_list<-list(liver,eye,brain,heart,muscle,skin,ovary,testis) #change the first entry in the list when computing exclusive orthologs
liver_excl<-purrr::reduce(ts_list,anti_join, by = "Orthogroup")# %>% write_csv("./Datasets/DatasetS0_csv_files/Liver_exclusive_orths.csv")
#muscle
ts_list<-list(muscle,eye,brain,heart,liver,skin,ovary,testis) #change the first entry in the list when computing exclusive orthologs
muscle_excl<-purrr::reduce(ts_list,anti_join, by = "Orthogroup")# %>% write_csv("./Datasets/DatasetS0_csv_files/Muscle_exclusive_orths.csv")
#skin
ts_list<-list(skin,eye,brain,heart,liver,muscle,ovary,testis) #change the first entry in the list when computing exclusive orthologs
skin_excl<-purrr::reduce(ts_list,anti_join, by = "Orthogroup")# %>% write_csv("./Datasets/DatasetS0_csv_files/Skin_exclusive_orths.csv")
#ovary
ts_list<-list(ovary,eye,brain,heart,liver,muscle,skin,testis) #change the first entry in the list when computing exclusive orthologs
ovary_excl<-purrr::reduce(ts_list,anti_join, by = "Orthogroup")# %>% write_csv("./Datasets/DatasetS0_csv_files/Overy_exclusive_orths.csv")
#testis
ts_list<-list(testis,eye,brain,heart,liver,muscle,skin,ovary) #change the first entry in the list when computing exclusive orthologs
testis_excl<-purrr::reduce(ts_list,anti_join, by = "Orthogroup")# %>% write_csv("./Datasets/DatasetS0_csv_files/Testis_exclusive_orths.csv")
rbind(brain_excl,eye_excl,heart_excl,liver_excl,muscle_excl,skin_excl,ovary_excl,testis_excl)->excl_tissue_spec
#convergent genes that are also tissue specific
d<-combined_arity %>% filter(Orthogroup %in% non_spuroius_conv$Orthogroup) %>% distinct(Orthogroup)
d<-d %>% mutate(c = "TRUE") %>%
mutate(brain_c = if_else(d$Orthogroup %in% brain_excl$Orthogroup, TRUE, FALSE)) %>%
mutate(eye_c = if_else(d$Orthogroup %in% eye_excl$Orthogroup, TRUE, FALSE)) %>%
mutate(heart_c = if_else(d$Orthogroup %in% heart_excl$Orthogroup, TRUE, FALSE)) %>%
mutate(liver_c = if_else(d$Orthogroup %in% liver_excl$Orthogroup, TRUE, FALSE)) %>%
mutate(muscle_c = if_else(d$Orthogroup %in% muscle_excl$Orthogroup, TRUE, FALSE)) %>%
mutate(skin_c = if_else(d$Orthogroup %in% skin_excl$Orthogroup, TRUE, FALSE)) %>%
mutate(ovary_c = if_else(d$Orthogroup %in% ovary_excl$Orthogroup, TRUE, FALSE)) %>%
mutate(testis_c = if_else(d$Orthogroup %in% testis_excl$Orthogroup, TRUE, FALSE))
d %>% mutate(spec_in_tissue=
case_when(brain_c==TRUE ~ "brain",
eye_c==TRUE ~ "eye",
heart_c==TRUE ~ "heart",
liver_c==TRUE ~ "liver",
muscle_c==TRUE ~ "muscle",
skin_c==TRUE ~ "skin",
ovary_c==TRUE ~ "ovary",
testis_c==TRUE ~ "testis")) %>% dplyr::select(Orthogroup,spec_in_tissue) %>% drop_na()->excl_conv_tissue
left_join(tau_dat_all$Danio_rerio,
danio_conv %>% dplyr::select(Orthogroup,orths) %>% dplyr::rename("Gene.ID"="orths") %>% mutate(conv="yes"),
by = "Gene.ID") %>% distinct(Gene.ID,.keep_all = T) %>% replace_na(list(conv="no")) %>% rowwise() %>%
mutate(num_tissues = sum(c_across(-c(Gene.ID,tau,conv,,Orthogroup)) > 0.1)) %>%
ungroup()->Danio_tau_conv_all
left_join(Danio_tau_conv_all, excl_conv_tissue, by = "Orthogroup") %>% mutate(spec_in_tissue=replace_na(spec_in_tissue,"no_tsp")) %>%
mutate(is_tsp=case_when(spec_in_tissue=="no_tsp" ~ "no", .default = "yes"))->estimated_ts_conv_Danio_tau_conv_allDistribution of tissue-specificity
#load all tissue-specificity data
tau_dat_all<-readRDS("./RDS/tau_dat_all2.rds")
#Function to plot tissue specificity and compare distributions.
ts_dis_plots<-function(dat,sp_name){
inner_join(
dat,
orth_list %>% filter(sp==sp_name) %>% dplyr::rename("Gene.ID"=orths) %>%
dplyr::select(Gene.ID,Orthogroup), by = "Gene.ID") %>%
mutate(state=case_when(Orthogroup %in% non_spuroius_conv$Orthogroup ~ "Convergent", .default = "Non-convergent")) %>% mutate(is_tsp=case_when(tau >= 0.8~"yes",.default = "no"))->tau_dist_dat
#gets p-val for the ks test
ks_test_pval<-(ksboot(x=tau_dist_dat %>% filter(state=="Convergent") %>% pull(tau),
y=tau_dist_dat %>% filter(state=="Non-convergent") %>% pull(tau), nboots = 5000,alternative = "two.sided"))$ksboot.pvalue %>% round(4)
#Plot
tau_dist_dat %>%
ggplot(aes(x=tau, fill = state, y=after_stat(density)))+
geom_density(alpha=0.6)+
facet_grid(rows=vars(state))+
scale_fill_manual(values = c("#EA5B15","#1AAEC0"))+
geom_vline(xintercept = 0.3, linetype="dashed")+#low tissue-specificity
geom_vline(xintercept = 0.8, linetype="dashed")+#high tissue-specificity
theme_bw()+
labs(title=paste0(str_replace(pattern = "_", string = sp_name, replacement = " ")),
subtitle = paste0("Two-sided KS test p-value: ",ks_test_pval))+
theme(plot.title = element_text(face = "italic"))->dist_ts
#ggpubr::ggarrange(dist_ts,legend = "none") %>% return()
tau_dist_dat %>% return() #for dist tests
}
ggpubr::ggarrange(
ts_dis_plots(tau_dat_all$Astyanax_mexicanus, sp_name = "Astyanax_mexicanus"),
ts_dis_plots(tau_dat_all$Astatotilapia_calliptera, sp_name = "Astatotilapia_calliptera"),
ts_dis_plots(tau_dat_all$Danio_rerio, sp_name = "Danio_rerio"),
ts_dis_plots(tau_dat_all$Esox_lucius, sp_name = "Esox_lucius"),
ts_dis_plots(tau_dat_all$Gasterosteus_aculeatus, sp_name = "Gasterosteus_aculeatus"),
ts_dis_plots(tau_dat_all$Gadus_morhua, sp_name = "Gadus_morhua"),
ts_dis_plots(tau_dat_all$Neolamprologus_brichardi, sp_name = "Neolamprologus_brichardi"),
ts_dis_plots(tau_dat_all$Nothobranchius_furzeri, sp_name = "Nothobranchius_furzeri"),
ts_dis_plots(tau_dat_all$Oryzias_latipes, sp_name = "Oryzias_latipes"),
ts_dis_plots(tau_dat_all$Salmo_salar, sp_name = "Salmo_salar"),
ts_dis_plots(tau_dat_all$Scophthalmus_maximus, sp_name = "Scophthalmus_maximus"))->ts_dis_dat
#ts_dis_dat %>% saveRDS("./RDS/ts_dis_dat.rds")readRDS("./RDS/ts_dis_dat.rds")
Get single cell distribution
In this analysis I look at the distribution of convergent genes and the different cells types they are expressed in. The rationale is to check whether on an average, the convergent genes are expressed in different number of cell types as compared to a background set of genes. Here, the background is all other genes, resulting in a null distribution. Using the Kolmogorov-Smirnov test, I test for divergence between the two distributions. Using the two-sided test I see that the distributions differ from one another, and using the one-sided test I check whether the values in the convergent group and higher than the test group at corresponding positions along the distributions where they diverge. The KS test shows that the values are greater at the divergent points, suggesting that convergent group of genes on an average are expressed in more cell types.
library(SingleCellExperiment)
library(scater)
library(scuttle)
danio_conv<-read_csv("./Datasets/DatasetS0_csv_files/Danio_rerio_convergent_genes.csv")
Danio_biomart<-read_csv("./Datasets/DatasetS0_csv_files/Danio_biomart.csv")
zhub_dat<-readRDS("./RDS/zhub_full_log.rds")
left_join(estimated_ts_conv_Danio_tau_conv_all,
Danio_biomart %>% dplyr::select(`Gene stable ID`, `Gene name`) %>%
dplyr::rename("Gene.ID"=`Gene stable ID`),
by = "Gene.ID") %>% distinct(Gene.ID, .keep_all = T)->estimated_ts_conv_Danio_tau_conv_all
#Function to load single cell data and process it
single_cell_df<-function(stage,gene_in){
zhub_dat<-readRDS(paste0("./RDS/zhub_",stage,"_log.rds"))
scuttle::makePerCellDF(zhub_dat, features = gene_in, assay.type = "logcounts", swap.rownames="gene_ids") %>%
dplyr::rename("logCounts"=gene_in) %>% filter(logCounts >= 0.5) %>% mutate(gene=gene_in)->cell_df
num_of_samples<-(length(cell_df %>% distinct(fish) %>% pull(fish))-1)
#Keep the cells with expression in at least max-1 samples
cell_df %>% group_by(zebrafish_anatomy_ontology_class) %>% summarise(count_fish=n_distinct(fish), .groups = "keep") %>%
ungroup() %>% filter(count_fish >= num_of_samples)->filter_in_cell_type
cell_df %>% filter(zebrafish_anatomy_ontology_class %in% filter_in_cell_type$zebrafish_anatomy_ontology_class) %>%
dplyr::select(gene,logCounts,timepoint,zebrafish_anatomy_ontology_class,
zebrafish_anatomy_ontology_id,fish,
X_umap.1,X_umap.2)->cell_df
return(cell_df)
}
single_cell_df<-possibly(.f = single_cell_df, otherwise = NULL)
purrr::map(.x=as.list(head(estimated_ts_conv_Danio_tau_conv_all %>%
filter(conv=="yes") %>% pull(Gene.ID))),
~single_cell_df(stage = "10hpf",gene_in = .x)) %>% list_rbind()->conv_cells_10hpf
purrr::map(.x=as.list(estimated_ts_conv_Danio_tau_conv_all %>%
filter(conv=="yes") %>% pull(Gene.ID)),
~single_cell_df(stage = "12hpf",gene_in = .x)) %>% list_rbind()->conv_cells_12hpf
purrr::map(.x=as.list(estimated_ts_conv_Danio_tau_conv_all %>%
filter(conv=="yes") %>% pull(Gene.ID)),
~single_cell_df(stage = "14hpf",gene_in = .x)) %>% list_rbind()->conv_cells_14hpf
purrr::map(.x=as.list(estimated_ts_conv_Danio_tau_conv_all %>%
filter(conv=="yes") %>% pull(Gene.ID)),
~single_cell_df(stage = "16hpf",gene_in = .x)) %>% list_rbind()->conv_cells_16hpf
purrr::map(.x=as.list(estimated_ts_conv_Danio_tau_conv_all %>%
filter(conv=="yes") %>% pull(Gene.ID)),
~single_cell_df(stage = "19hpf",gene_in = .x)) %>% list_rbind()->conv_cells_19hpf
purrr::map(.x=as.list(estimated_ts_conv_Danio_tau_conv_all %>%
filter(conv=="yes") %>% pull(Gene.ID)),
~single_cell_df(stage = "24hpf",gene_in = .x)) %>% list_rbind()->conv_cells_24hpf
purrr::map(.x=as.list(estimated_ts_conv_Danio_tau_conv_all %>%
filter(conv=="yes") %>% pull(Gene.ID)),
~single_cell_df(stage = "3dpf",gene_in = .x)) %>% list_rbind()->conv_cells_3dpf
purrr::map(.x=as.list(estimated_ts_conv_Danio_tau_conv_all %>%
filter(conv=="yes") %>% pull(Gene.ID)),
~single_cell_df(stage = "5dpf",gene_in = .x)) %>% list_rbind()->conv_cells_5dpf
purrr::map(.x=as.list(estimated_ts_conv_Danio_tau_conv_all %>%
filter(conv=="yes") %>% pull(Gene.ID)),
~single_cell_df(stage = "10dpf",gene_in = .x)) %>% list_rbind()->conv_cells_10dpf
#All cells
system.time(
purrr::map(.x=as.list(rowData(zhub_dat)$gene_ids[1:20]),
~single_cell_df(stage = "10hpf",gene_in = .x)) %>% list_rbind()->all_gene_10hpf
)
purrr::map(.x=as.list(rowData(zhub_dat)$gene_ids),
~single_cell_df(stage = "12hpf",gene_in = .x)) %>% list_rbind()->all_gene_12hpf
all_gene_12hpf %>% saveRDS("./RDS/all_gene_12hpf.rds")
purrr::map(.x=as.list(rowData(zhub_dat)$gene_ids),
~single_cell_df(stage = "14hpf",gene_in = .x)) %>% list_rbind()->all_gene_14hpf
all_gene_14hpf %>% saveRDS("./RDS/all_gene_14hpf.rds")
purrr::map(.x=as.list(rowData(zhub_dat)$gene_ids),
~single_cell_df(stage = "16hpf",gene_in = .x)) %>% list_rbind()->all_gene_16hpf
purrr::map(.x=as.list(rowData(zhub_dat)$gene_ids),
~single_cell_df(stage = "19hpf",gene_in = .x)) %>% list_rbind()->all_gene_19hpf
purrr::map(.x=as.list(rowData(zhub_dat)$gene_ids),
~single_cell_df(stage = "24hpf",gene_in = .x)) %>% list_rbind()->all_gene_24hpf
purrr::map(.x=as.list(rowData(zhub_dat)$gene_ids),
~single_cell_df(stage = "3dpf",gene_in = .x)) %>% list_rbind()->conv_cells_3dpf
purrr::map(.x=as.list(rowData(zhub_dat)$gene_ids),
~single_cell_df(stage = "5dpf",gene_in = .x)) %>% list_rbind()->all_gene_5dpf
purrr::map(.x=as.list(rowData(zhub_dat)$gene_ids),
~single_cell_df(stage = "10dpf",gene_in = .x)) %>% list_rbind()->all_gene_10dpf
sc_dist_analysis<-function(sc_dat, plot_title){
#count the number of unique cell types per gene and get their ortholog annotations
inner_join(
sc_dat %>% summarise(no_uniq_cells_types=n_distinct(zebrafish_anatomy_ontology_class), .by = "gene"),
orth_list %>% dplyr::select(Orthogroup,orths,sp) %>% filter(sp=="Danio_rerio") %>% dplyr::rename("gene"=orths),by = "gene") %>% dplyr::rename("Gene.ID"=gene)->cell_types_orth
#Get information on convergence
rbind(
cell_types_orth %>% filter(Orthogroup %in% non_spuroius_conv$Orthogroup) %>% mutate(state="conv"),
cell_types_orth %>% filter(!Orthogroup %in% non_spuroius_conv$Orthogroup) %>% mutate(state="non_conv"))->test_dat
#Get information of tissue specificity
test_dat %>% mutate(is_tsp=case_when(Orthogroup %in% (estimated_ts_conv_Danio_tau_conv_all %>% filter(is_tsp=="yes"))$Orthogroup ~ "yes",.default = "no"))->test_dat
(ks.test(x=test_dat %>% filter(state=="conv") %>% pull(no_uniq_cells_types),
y=test_dat %>% filter(state=="non_conv") %>% pull(no_uniq_cells_types),
alternative = "two.sided"))$p.value->ks_pval_two_sided
(ks.test(x=test_dat %>% filter(state=="conv") %>% pull(no_uniq_cells_types),
y=test_dat %>% filter(state=="non_conv") %>% pull(no_uniq_cells_types),
alternative = "greater"))$p.value->ks_pval_greater
(ks.test(x=test_dat %>% filter(state=="conv") %>% pull(no_uniq_cells_types),
y=test_dat %>% filter(state=="non_conv") %>% pull(no_uniq_cells_types),
alternative = "less"))$p.value->ks_pval_less
test_dat %>%
ggplot(aes(x=no_uniq_cells_types, fill = state))+
geom_density(alpha=0.6)+
scale_fill_manual(values = c("#EA5B15","#1AAEC0"))+
xlab("Number of unique cell types")+
labs(title = str_remove(string = paste0(plot_title),
pattern ="all_gene_"),
subtitle = paste0("One-sided KS-test p-value: ", signif(ks_pval_greater, digits = 3)))+
theme_bw()+
theme(text = element_text(size=8))->dist_plot
test_dat %>%
ggplot(aes(x=no_uniq_cells_types, color= state))+
stat_ecdf()+
xlab("Number of unique cell types")+
scale_color_manual(values = c("#EA5B15","#1AAEC0"))+
theme_bw()+
labs(title = "Cumulative probability distrubutions")+
theme(text = element_text(size=8))->ecdf_plot
ggarrange(dist_plot, ecdf_plot, ncol = 1, common.legend = T)->c_plot
return(list(dist_plot_dat=dist_plot$data,c_plot=c_plot, ks_pval_two_sided=ks_pval_two_sided, ks_pval_greater=ks_pval_greater, ks_pval_less=ks_pval_less))
}
#Load processed sc data frame and run above function
all_gene_10hpf<-readRDS("./RDS/all_gene_10hpf.rds")
sc_dist_analysis(sc_dat = all_gene_10hpf, plot_title= "Distribution of gene expression\nin unique cell types at 10hpf")->dist_res_10hpf
dist_res_10hpf %>% saveRDS("./RDS/dist_res_10hpf.rds")
rm(all_gene_10hpf)
all_gene_12hpf<-readRDS("./RDS/all_gene_12hpf.rds")
sc_dist_analysis(sc_dat = all_gene_12hpf, plot_title= "Distribution of gene expression\nin unique cell types at 12hpf")->dist_res_12hpf
dist_res_12hpf %>% saveRDS("./RDS/dist_res_12hpf.rds")
rm(all_gene_12hpf)
all_gene_14hpf<-readRDS("./RDS/all_gene_14hpf.rds")
sc_dist_analysis(sc_dat = all_gene_14hpf, plot_title= "Distribution of gene expression\nin unique cell types at 14hpf")->dist_res_14hpf
dist_res_14hpf %>% saveRDS("./RDS/dist_res_14hpf.rds")
rm(all_gene_14hpf)
all_gene_16hpf<-readRDS("./RDS/all_gene_16hpf.rds")
sc_dist_analysis(sc_dat = all_gene_16hpf, plot_title= "Distribution of gene expression\nin unique cell types at 16hpf")->dist_res_16hpf
dist_res_16hpf %>% saveRDS("./RDS/dist_res_16hpf.rds")
rm(all_gene_16hpf)
all_gene_19hpf<-readRDS("./RDS/all_gene_19hpf.rds")
sc_dist_analysis(sc_dat = all_gene_19hpf, plot_title= "Distribution of gene expression\nin unique cell types at 19hpf")->dist_res_19hpf
dist_res_19hpf %>% saveRDS("./RDS/dist_res_19hpf.rds")
rm(all_gene_19hpf)
all_gene_24hpf<-readRDS("./RDS/all_gene_24hpf.rds")
sc_dist_analysis(sc_dat = all_gene_24hpf, plot_title= "Distribution of gene expression\nin unique cell types at 24hpf")->dist_res_24hpf
dist_res_24hpf %>% saveRDS("./RDS/dist_res_24hpf.rds")
rm(all_gene_24hpf)
all_gene_3dpf<-readRDS("./RDS/all_gene_3dpf.rds")
sc_dist_analysis(sc_dat = all_gene_3dpf, plot_title= "Distribution of gene expression\nin unique cell types at 3dpf")->dist_res_3dpf
dist_res_3dpf %>% saveRDS("./RDS/dist_res_3dpf.rds")
rm(all_gene_3dpf)
all_gene_5dpf<-readRDS("./RDS/all_gene_5dpf.rds")
sc_dist_analysis(sc_dat = all_gene_5dpf, plot_title= "Distribution of gene expression\nin unique cell types at 5dpf")->dist_res_5dpf
dist_res_5dpf %>% saveRDS("./RDS/dist_res_5dpf.rds")
rm(all_gene_5dpf)
all_gene_10dpf<-readRDS("./RDS/all_gene_10dpf.rds")
sc_dist_analysis(sc_dat = all_gene_10dpf, plot_title= "Distribution of gene expression\nin unique cell types at 10dpf")->dist_res_10dpf
dist_res_10dpf %>% saveRDS("./RDS/dist_res_10dpf.rds")#This takes very long; couple of hours and is a very large rds (~1.5GB). Therefore, have not included
rm(all_gene_10dpf)
dist_res_10hpf<-readRDS("./RDS/dist_res_10hpf.rds")
dist_res_12hpf<-readRDS("./RDS/dist_res_12hpf.rds")
dist_res_14hpf<-readRDS("./RDS/dist_res_14hpf.rds")
dist_res_16hpf<-readRDS("./RDS/dist_res_16hpf.rds")
dist_res_19hpf<-readRDS("./RDS/dist_res_19hpf.rds")
dist_res_24hpf<-readRDS("./RDS/dist_res_24hpf.rds")
dist_res_3dpf<-readRDS("./RDS/dist_res_3dpf.rds")
dist_res_5dpf<-readRDS("./RDS/dist_res_5dpf.rds")
dist_res_10dpf<-readRDS("./RDS/dist_res_10dpf.rds")#This takes very long; couple of hours and is a very large rds (~1.5GB). Therefore, have not includeddist_res_10hpfRunning cell distribution analysis for random set of genes
Here I run the analysis using a random set of genes. While visually the distributions may look similar at times, the KS test shows that their distributions are not different from the background. This suggests that the convergent genes have a unique distribution of gene expression in different cell types as opposed to any random set of genes. I am showing the results here for 10hpf and 10dps, Users can run the code for any other time point.
sc_dist_random<-function(sc_dat, plot_title){
#count the number of unique cell types per gene and get their ortholog annotations
inner_join(
sc_dat %>% summarise(no_uniq_cells_types=n_distinct(zebrafish_anatomy_ontology_class), .by = "gene"),
orth_list %>% dplyr::select(Orthogroup,orths,sp) %>% filter(sp=="Danio_rerio") %>% dplyr::rename("gene"=orths),by = "gene") %>% dplyr::rename("Gene.ID"=gene)->cell_types_orth
#Takes a random set of 89 orthogroups
rbind(
cell_types_orth %>% filter(Orthogroup %in% (orth_list %>% distinct(Orthogroup) %>% pull(Orthogroup))[runif(89, min = 1, max = 8308)]) %>%
mutate(state="conv"), cell_types_orth %>% filter(!Orthogroup %in% non_spuroius_conv$Orthogroup) %>% mutate(state="non_conv"))->test_dat
#Get information of tissue specificity
test_dat %>% mutate(is_tsp=case_when(Orthogroup %in% (estimated_ts_conv_Danio_tau_conv_all %>% filter(is_tsp=="yes"))$Orthogroup ~ "yes",.default = "no"))->test_dat
(ks.test(x=test_dat %>% filter(state=="conv") %>% pull(no_uniq_cells_types),
y=test_dat %>% filter(state=="non_conv") %>% pull(no_uniq_cells_types),
alternative = "two.sided"))$p.value->ks_pval_two_sided
(ks.test(x=test_dat %>% filter(state=="conv") %>% pull(no_uniq_cells_types),
y=test_dat %>% filter(state=="non_conv") %>% pull(no_uniq_cells_types),
alternative = "greater"))$p.value->ks_pval_greater
(ks.test(x=test_dat %>% filter(state=="conv") %>% pull(no_uniq_cells_types),
y=test_dat %>% filter(state=="non_conv") %>% pull(no_uniq_cells_types),
alternative = "less"))$p.value->ks_pval_less
test_dat %>%
ggplot(aes(x=no_uniq_cells_types, fill = state))+
geom_density(alpha=0.6)+
scale_fill_manual(values = c("#EA5B15","#1AAEC0"))+
xlab("Number of unique cell types")+
labs(title = str_remove(string = paste0(plot_title),
pattern ="all_gene_"),
subtitle = paste0("One-sided KS-test p-value: ", signif(ks_pval_greater, digits = 3)))+
theme_bw()+
theme(text = element_text(size=8))->dist_plot
test_dat %>%
ggplot(aes(x=no_uniq_cells_types, color= state))+
stat_ecdf()+
xlab("Number of unique cell types")+
scale_color_manual(values = c("#EA5B15","#1AAEC0"))+
theme_bw()+
labs(title = "Cumulative probability distrubutions")+
theme(text = element_text(size=8))->ecdf_plot
ggarrange(dist_plot, ecdf_plot, ncol = 1, common.legend = T)->c_plot
return(list(c_plot=c_plot, ks_pval_two_sided=ks_pval_two_sided, ks_pval_greater=ks_pval_greater, ks_pval_less=ks_pval_less))
}
sc_dist_random(sc_dat = all_gene_10hpf, plot_title= "Random genes at 10hpf")->dist_random_10hpf
sc_dist_random(sc_dat = all_gene_10dpf, plot_title= "Random genes at 10dpf")->dist_random_10dpfSementic Similaritry of gene sets
In this section I check whether the convergent genes and sets of non-convergent (background) genes differ in terms of the diversity of biological features they are associated with. To do this I estimate Sementic Similaritry (SS) of the GO terms. SS uses the information content of GO terms as well as their ontology structure to allow comparison of genes annotated with GO terms. Higher the SS the more closely related two gene products (or gene sets are). I estimate the pairwise SS of two gene sets, the convergent genes and a background gene set. I found that the convergent genes on an average, have lower SS for Biological Process terms and Cellular Component terms than a background set (one-sided KS-test). This implies that the convergent gene sets are likely associate with more diverse set of processes and are expressed in a more diverse cellular structures than the background.
Loading the GO annotations
library(GOSemSim)
library(org.Dr.eg.db)
library(AnnotationDbi)
#Load Danio data
read_csv("./Datasets/DatasetS0_csv_files/Danio_biomart.csv")->Danio_biomart
danio_conv<-read_csv("./Datasets/DatasetS0_csv_files/Danio_rerio_convergent_genes.csv")
#Get GO data
go_annotations <- select(org.Dr.eg.db,
keys = keys(org.Dr.eg.db, keytype = "ENSEMBL"),
columns = c("GO", "ONTOLOGY"),
keytype = "ENSEMBL")
#Prepare the semantic data
drGO_BP<-godata('org.Dr.eg.db', keytype="ENSEMBL", ont="BP")
drGO_MF<-godata('org.Dr.eg.db', keytype="ENSEMBL", ont="MF")
drGO_CC<-godata('org.Dr.eg.db', keytype="ENSEMBL", ont="CC")
#Specify gene sets
geneset_conv<-orth_list %>% filter(sp=="Danio_rerio") %>% filter(Orthogroup %in% non_spuroius_conv$Orthogroup)
geneset_nc<-orth_list %>% filter(sp=="Danio_rerio") %>% filter(!Orthogroup %in% non_spuroius_conv$Orthogroup)
#Retrieve annotations
go_annotations_BP <- go_annotations %>% filter(ONTOLOGY=="BP")
go_annotations_MF <- go_annotations %>% filter(ONTOLOGY=="MF")
go_annotations_CC <- go_annotations %>% filter(ONTOLOGY=="CC")Calculating SS
#Select a random geneset a background
#I've repeated the analysis using multiple random gene sets are the result is always the same. Try!
#Selecting 120 Orthogroups gives around the same number of genes
#We also ran this with 2000 random orthogroups as the background, and we sill get the same results. Note, this analysis can take some time.
#set.seed(1234)
ss_test_with_random_sampling<-function(){
random_set<-geneset_nc %>% distinct(Orthogroup) %>% slice_sample(n=120) %>% pull(Orthogroup)
#Compute SS between gene sets for each GO term category
mgeneSim(genes=geneset_conv$orths,
semData=drGO_BP, measure="Wang",verbose=FALSE, combine = "BMA")->gene_sem_conv_BP
mgeneSim(genes=geneset_nc %>%
filter(Orthogroup %in% random_set) %>% pull(orths),
semData=drGO_BP, measure="Wang",verbose=FALSE, combine = "BMA")->gene_sem_nc_BP
mgeneSim(genes=geneset_conv$orths,
semData=drGO_MF, measure="Wang",verbose=FALSE, combine = "BMA")->gene_sem_conv_MF
mgeneSim(genes=geneset_nc %>%
filter(Orthogroup %in% random_set) %>% pull(orths),
semData=drGO_MF, measure="Wang",verbose=FALSE, combine = "BMA")->gene_sem_nc_MF
mgeneSim(genes=geneset_conv$orths,
semData=drGO_CC, measure="Wang",verbose=FALSE, combine = "BMA")->gene_sem_conv_CC
mgeneSim(genes=geneset_nc %>%
filter(Orthogroup %in% random_set) %>% pull(orths),
semData=drGO_CC, measure="Wang",verbose=FALSE, combine = "BMA")->gene_sem_nc_CC
#remove self comparisons and symetric comparisons and combine into one df
rbind(
reshape2::melt(gene_sem_nc_BP) %>% filter(Var1!=Var2) %>%
distinct(Var1, Var2, .keep_all = TRUE)%>% mutate(type="Non-convergent",GO_group="BP"),
reshape2::melt(gene_sem_nc_MF) %>% filter(Var1!=Var2) %>%
distinct(Var1, Var2, .keep_all = TRUE)%>% mutate(type="Non-convergent",GO_group="MF"),
reshape2::melt(gene_sem_nc_CC) %>% filter(Var1!=Var2) %>%
distinct(Var1, Var2, .keep_all = TRUE)%>% mutate(type="Non-convergent",GO_group="CC"),
reshape2::melt(gene_sem_conv_BP) %>% filter(Var1!=Var2) %>%
distinct(Var1, Var2, .keep_all = TRUE)%>% mutate(type="Convergent",GO_group="BP"),
reshape2::melt(gene_sem_conv_MF) %>% filter(Var1!=Var2) %>%
distinct(Var1, Var2, .keep_all = TRUE)%>% mutate(type="Convergent",GO_group="MF"),
reshape2::melt(gene_sem_conv_CC) %>% filter(Var1!=Var2) %>%
distinct(Var1, Var2, .keep_all = TRUE)%>% mutate(type="Convergent",GO_group="CC"))->ss_test
ksboot(ss_test %>% filter(GO_group=="BP") %>% filter(type=="Convergent") %>% pull(value),
ss_test %>% filter(GO_group=="BP") %>% filter(type=="Non-convergent") %>% pull(value),
alternative = "greater", exact = T,nboots = 5000)->kstest
return(tibble(ks.pval=kstest$p.value, ks.alternative=kstest$alternative))
}
purrr::map(1:200, ~ ss_test_with_random_sampling()) %>% list_rbind()->ss_test_wang_ks_res
ss_test_wang_ks_res %>% mutate(padj=p.adjust(ks.pval, "BH")) %>% saveRDS("./RDS/ss_test_wang_ks_res.rds")
ss_test %>% saveRDS("./RDS/ss_test_Wang.rds")
#ss_test %>% saveRDS("./RDS/ss_test_Wang_2k.rds") #Another data set with 2 orths. Gives same result. ss_test<-readRDS("./RDS/ss_test_Wang.rds")
#Plot the difference in SS between groups with the test p-value;
#the one-sided test checks whether the divergence of the convergent distribution is significantly higher at the corresponding values.
ss_test %>% filter(GO_group=="BP") %>%
ggplot(aes(x=log2(value), fill = type))+
geom_density(color="black", alpha=0.6)+
theme_bw()+
scale_fill_manual(values = c("#EA5B15","#1AAEC0"))+
xlab("log2(Wang's sementic similarity)")+
labs(title = "Biological Process Terms",
subtitle = paste0("One-sided KS p-value = ",
signif(ks.test(ss_test %>% filter(GO_group=="BP") %>% filter(type=="Convergent") %>% pull(value),
ss_test %>% filter(GO_group=="BP") %>% filter(type=="Non-convergent") %>% pull(value),
alternative = "greater", exact = T)$p.value,digits = 3)))->g_bp_ks
ss_test %>% filter(GO_group=="MF") %>%
ggplot(aes(x=log2(value), fill = type))+
geom_density(color="black", alpha=0.6)+
scale_fill_manual(values = c("#EA5B15","#1AAEC0"))+
theme_bw()+
xlab("log2(Wang's sementic similarity)")+
labs(title = "Molecular Function Terms",
subtitle = paste0("One-sided KS p-value = ",
signif(ks.test(ss_test %>% filter(GO_group=="MF") %>% filter(type=="Convergent") %>% pull(value),
ss_test %>% filter(GO_group=="MF") %>% filter(type=="Non-convergent") %>% pull(value),
alternative = "greater",exact = T)$p.value, digits = 3)))->g_mf_ks
ss_test %>% filter(GO_group=="CC") %>%
ggplot(aes(x=log2(value), fill = type))+
geom_density(color="black", alpha=0.6)+
scale_fill_manual(values = c("#EA5B15","#1AAEC0"))+
theme_bw()+
xlab("log2(Wang's sementic similarity)")+
labs(title = "Cellular Component Terms",
subtitle = paste0("One-sided KS test p-value = ",
signif(ks.test(ss_test %>% filter(GO_group=="CC") %>% filter(type=="Convergent") %>% pull(value),
ss_test %>% filter(GO_group=="CC") %>% filter(type=="Non-convergent") %>% pull(value),
alternative = "greater",exact = T)$p.value, digits = 3)))->g_cc_ks
ggpubr::ggarrange(g_bp_ks,g_mf_ks,g_cc_ks,ncol = 1, common.legend = T,legend = "none")
SS Dendrogram
In this section I do a semantic similarity analysis between GO terms and then make a dendrogram to visualise their diversity and similarity.
##Compute SS between terms
SemSim_compute<-function(ensembl,annot,measure, semData){
expand_grid(c1=annot %>% filter(ENSEMBL==paste0(ensembl)) %>% pull(GO),
c2=annot %>% filter(ENSEMBL==paste0(ensembl)) %>% pull(GO)) %>%
filter(c1 != c2) %>%
# Ensure symmetric rows are removed
rowwise() %>%
mutate(pair = list(sort(c(c1, c2)))) %>%
ungroup() %>%
distinct(pair, .keep_all = TRUE) %>%
dplyr::select(-pair)->dat
#Make the function to calculate semantic similarity
avg_semsim<-function(go1,go2,measure,combine,ensembl){
goSim(go1, go2, semData=semData, measure=measure)->res
data.frame(GO1=go1,
GO2=go2,
ss=res,
ensembl_id=ensembl)->res_dat
return(res_dat)
}
purrr::pmap(list(.x = as.list(dat$c1),
.y = as.list(dat$c2)),
~avg_semsim(go1=.x, go2=.y,
ensembl=ensembl,
measure = measure)) %>% list_rbind()->ss_res
return(ss_res)
}
#To get the graphs for the other categories, replace go_annotations_BP, and drGO_BP
purrr::map(.x=as.list(geneset_conv$orths),
~SemSim_compute(ensembl = .x,
annot=go_annotations_BP,
semData=drGO_BP, measure="Wang")) %>% list_rbind()->ss_out_conv
# Function to get GO term descriptions
get_go_description <- function(go_terms) {
library(GO.db)
map_chr(go_terms, ~ AnnotationDbi::select(GO.db, keys = .x, columns = "TERM", keytype = "GOID")$TERM[1] %||% NA)
}
# Add descriptions to dataframe
df <- ss_out_conv %>% na.omit() %>%
mutate(
GO1_Description = get_go_description(GO1),
GO2_Description = get_go_description(GO2)
)
#df %>% write_csv("./Datasets/DatasetS0_csv_files/SS_graph_data_CC.csv")These plots can be found in Datasets S12 in the online repository.
library(enrichplot)
library(clusterProfiler)
df<-read_csv("./Datasets/DatasetS0_csv_files/SS_graph_data_BP.csv")
#df <- df %>% na.omit() %>% filter(ss <= 0.5) #for the figure in the main text I use this filter to make visualisation clearer.
# Make custom enrichResult object
data.frame(ID=c(df$GO1,df$GO2)) %>% mutate(Description=get_go_description(c(df$GO1,df$GO2)))->t
inner_join(t,df %>% dplyr::select(GO1,ensembl_id) %>%
dplyr::rename("ID"="GO1"), by = "ID",relationship = "many-to-many") %>%
distinct(ID,ensembl_id, .keep_all = T)->t
t %>% group_by(ID, Description) %>% mutate(Count=n_distinct(ensembl_id)) %>% ungroup()->t
t %>% mutate(pvalue=0.05, p.adjust = 0.05) %>% dplyr::rename("geneID"="ensembl_id")->t2
t2 %>% distinct(ID, .keep_all = T) %>% column_to_rownames("ID") %>%
mutate(ID=t2 %>% distinct(ID) %>% pull(ID)) %>%
dplyr::select(ID, Description, pvalue,p.adjust,geneID,Count)->t2
custom_enrich <- new(
"enrichResult",
result = t2 %>% distinct(ID, .keep_all = T),
organism = "custom",
keytype = "ENSEMBL",
ontology = "BP",#Can be kept the same
gene = unlist(strsplit(t2$geneID, "/")),
geneSets = list(),
pvalueCutoff = 0.05,
pAdjustMethod = "BH"
)
go_db <- godata('org.Dr.eg.db', ont="BP", computeIC=FALSE)#Change ont for other categories
sim_matrix <- setReadable(custom_enrich, 'org.Dr.eg.db', 'ENSEMBL')
sim_matrix <- enrichplot::pairwise_termsim(custom_enrich, semData=go_db, method = "Wang")
p_sim_matrix<- enrichplot::treeplot(sim_matrix)
dist_matrix <- as.dist(1 - sim_matrix@termsim)
hc <- hclust(dist_matrix, method = "ward.D2")
hc_dendro<-as.dendrogram(hc)
hc_dendro_data <- ggdendro::dendro_data(hc_dendro,type="rectangle")
labels_df <- hc_dendro_data$labels
left_join(
left_join(labels_df,t2 %>% dplyr::select(Description,geneID),by=c("label"="Description")),
danio_conv %>% dplyr::select(orths,`Gene name`), by=c("geneID"="orths")) %>% ungroup() %>% distinct(label,`Gene name`) %>% mutate(label=paste0(`Gene name`))->labels_gene_name
gene_colors <- colorspace::qualitative_hcl(n = 68, palette = "set3")
tibble(labels_gene_name %>% distinct(`Gene name`),
gene_colors=gene_colors)
left_join(labels_gene_name,
tibble(labels_gene_name %>% distinct(`Gene name`),
gene_colors=gene_colors),
by=c("Gene name"="Gene name"))->colors_gene
labels_df2<-tibble(x=labels_df$x, y=labels_df$y, label=labels_df$label, label2=labels_gene_name$label, col=colors_gene$gene_colors)
#These labels are for BP; users have to annotate the other categories themselves.
#labels_df$type<-c(rep("Development",36),
# rep("Translation and protein processing",32),
# rep("Metabolic process",11),
# rep("Transport",20),
# rep("Immune response",21),
# rep("Pigmentation and behaviour",4),
# rep("Mitotic process",15),
# rep("Signalling pathways",17),
# rep("Reproduction related",3),
# rep("Cell cycle and homeostasis",12))
library(ggdendro)
ggplot(segment(hc_dendro_data)) +
geom_segment(aes(x = x, y = y, xend = xend, yend = yend))+
geom_text(data = labels_df2,
aes(x=x, y=y-0.05, label=label2, colour = col),
hjust = 0,vjust = 0.4, size=3,fontface="italic")+
geom_text(data = labels_df2,
aes(x=x, y=y-0.5, label=label),
hjust = 0,vjust = 0.4, size=3)+
coord_flip()+
scale_y_reverse(expand = c(0.9, 0))+
scale_color_identity()+
theme_void()Phenotypic effect distribution
We collected data from the Zebrafish International Network (ZFIN) database to examine the distribution of unique phenotypic terms associated with genetic perturbation (knockdowns, mutation screens, and morpholino experiments) in Danio rerio. The ZFIN database provides a wide array of expertly curated cross referenced genetic and genomics data that is routinely used to study gene functions. For the convergent genes with data in ZFIN, we observed that genetic perturbation can affect several structures across multiple tissue systems. Compared to the background of all genes with available phenotypic data, the convergent genes had a higher distribution at intermediate levels of affected phenotypic terms, significantly different from the background (one-sided Kolmogorov-Smirnov test P < 0.05)
Load the data
read_csv("./Datasets/DatasetS0_csv_files/Danio_biomart.csv")->Danio_biomart #Obtained from bioMart package
read_tsv("./Datasets/DatasetS0_csv_files/phenoGeneCleanData_fish_2023.05.07.tsv")->pheno #Download from ZFIN
get_danio<-function(data,name){
orth_list %>% filter(Species=="Danio_rerio") %>% filter(Orthogroup %in% data)->d
Danio_biomart %>% filter(`Gene stable ID` %in% d$orths) %>% distinct(`Gene name`) %>% write_csv(paste0("./Datasets/DatasetS0_csv_files/",name,"_convergent_Danio_genes.csv"))
}
get_danio(non_spuroius_conv$Orthogroup,"Non_spurious_conv")
orth_list %>% filter(Orthogroup %in% non_spuroius_conv$Orthogroup) %>% filter(sp == "Danio_rerio") %>% dplyr::select(Orthogroup,orths)->dan
left_join(dan,pheno %>% filter(`Gene Symbol` %in% dan$`Gene name`) %>% dplyr::rename(`Gene name`=`Gene Symbol`), by = "Gene name") %>% write_csv("./Datasets/DatasetS0_csv_files/Danio_rerio_convergent_genes_pheno.csv")ZFIN table
| Orthogroup | orths | Gene stable ID version | Transcript stable ID | Transcript stable ID version | Gene name | Gene description | Affected Structure or Process 1 superterm Name | Phenotype Keyword Name | Phenotype Tag | Publication ID |
|---|---|---|---|---|---|---|---|---|---|---|
| OG0001823 | ENSDARG00000116648 | ENSDARG00000116648.1 | ENSDART00000192702 | ENSDART00000192702.1 | alcama | activated leukocyte cell adhesion molecule a [Source:NCBI gene;Acc:30194] | amacrine cell | decreased amount | abnormal | ZDB-PUB-090106-20 |
| OG0001823 | ENSDARG00000116648 | ENSDARG00000116648.1 | ENSDART00000192702 | ENSDART00000192702.1 | alcama | activated leukocyte cell adhesion molecule a [Source:NCBI gene;Acc:30194] | amacrine cell | decreased amount | abnormal | ZDB-PUB-090106-20 |
| OG0001823 | ENSDARG00000116648 | ENSDARG00000116648.1 | ENSDART00000192702 | ENSDART00000192702.1 | alcama | activated leukocyte cell adhesion molecule a [Source:NCBI gene;Acc:30194] | cardiac ventricle | elongated | abnormal | ZDB-PUB-190405-15 |
| OG0001823 | ENSDARG00000116648 | ENSDARG00000116648.1 | ENSDART00000192702 | ENSDART00000192702.1 | alcama | activated leukocyte cell adhesion molecule a [Source:NCBI gene;Acc:30194] | ceratohyal cartilage | fused with | abnormal | ZDB-PUB-101122-3 |
| OG0001823 | ENSDARG00000116648 | ENSDARG00000116648.1 | ENSDART00000192702 | ENSDART00000192702.1 | alcama | activated leukocyte cell adhesion molecule a [Source:NCBI gene;Acc:30194] | cranial nerve II | aplastic | abnormal | ZDB-PUB-090106-20 |
| OG0001823 | ENSDARG00000116648 | ENSDARG00000116648.1 | ENSDART00000192702 | ENSDART00000192702.1 | alcama | activated leukocyte cell adhesion molecule a [Source:NCBI gene;Acc:30194] | cranial nerve II | aplastic | abnormal | ZDB-PUB-090106-20 |
| OG0001823 | ENSDARG00000116648 | ENSDARG00000116648.1 | ENSDART00000192702 | ENSDART00000192702.1 | alcama | activated leukocyte cell adhesion molecule a [Source:NCBI gene;Acc:30194] | cranial nerve II | decreased thickness | abnormal | ZDB-PUB-090106-20 |
| OG0001823 | ENSDARG00000116648 | ENSDARG00000116648.1 | ENSDART00000192702 | ENSDART00000192702.1 | alcama | activated leukocyte cell adhesion molecule a [Source:NCBI gene;Acc:30194] | cranial nerve II | decreased thickness | abnormal | ZDB-PUB-090106-20 |
| OG0001823 | ENSDARG00000116648 | ENSDARG00000116648.1 | ENSDART00000192702 | ENSDART00000192702.1 | alcama | activated leukocyte cell adhesion molecule a [Source:NCBI gene;Acc:30194] | cranial nerve II | aplastic | abnormal | ZDB-PUB-090106-20 |
| OG0001823 | ENSDARG00000116648 | ENSDARG00000116648.1 | ENSDART00000192702 | ENSDART00000192702.1 | alcama | activated leukocyte cell adhesion molecule a [Source:NCBI gene;Acc:30194] | cranial nerve II | aplastic | abnormal | ZDB-PUB-090106-20 |
| OG0001823 | ENSDARG00000116648 | ENSDARG00000116648.1 | ENSDART00000192702 | ENSDART00000192702.1 | alcama | activated leukocyte cell adhesion molecule a [Source:NCBI gene;Acc:30194] | cranial nerve II | decreased thickness | abnormal | ZDB-PUB-090106-20 |
| OG0001823 | ENSDARG00000116648 | ENSDARG00000116648.1 | ENSDART00000192702 | ENSDART00000192702.1 | alcama | activated leukocyte cell adhesion molecule a [Source:NCBI gene;Acc:30194] | cranial nerve II | decreased thickness | abnormal | ZDB-PUB-090106-20 |
| OG0001823 | ENSDARG00000116648 | ENSDARG00000116648.1 | ENSDART00000192702 | ENSDART00000192702.1 | alcama | activated leukocyte cell adhesion molecule a [Source:NCBI gene;Acc:30194] | cranial nerve II | aplastic | abnormal | ZDB-PUB-090106-20 |
| OG0001823 | ENSDARG00000116648 | ENSDARG00000116648.1 | ENSDART00000192702 | ENSDART00000192702.1 | alcama | activated leukocyte cell adhesion molecule a [Source:NCBI gene;Acc:30194] | cranial nerve II | aplastic | abnormal | ZDB-PUB-090106-20 |
| OG0001823 | ENSDARG00000116648 | ENSDARG00000116648.1 | ENSDART00000192702 | ENSDART00000192702.1 | alcama | activated leukocyte cell adhesion molecule a [Source:NCBI gene;Acc:30194] | cranial nerve II | decreased thickness | abnormal | ZDB-PUB-090106-20 |
| OG0001823 | ENSDARG00000116648 | ENSDARG00000116648.1 | ENSDART00000192702 | ENSDART00000192702.1 | alcama | activated leukocyte cell adhesion molecule a [Source:NCBI gene;Acc:30194] | cranial nerve II | decreased thickness | abnormal | ZDB-PUB-090106-20 |
| OG0001823 | ENSDARG00000116648 | ENSDARG00000116648.1 | ENSDART00000192702 | ENSDART00000192702.1 | alcama | activated leukocyte cell adhesion molecule a [Source:NCBI gene;Acc:30194] | eye | decreased size | abnormal | ZDB-PUB-090106-20 |
| OG0001823 | ENSDARG00000116648 | ENSDARG00000116648.1 | ENSDART00000192702 | ENSDART00000192702.1 | alcama | activated leukocyte cell adhesion molecule a [Source:NCBI gene;Acc:30194] | eye | decreased size | abnormal | ZDB-PUB-090106-20 |
| OG0001823 | ENSDARG00000116648 | ENSDARG00000116648.1 | ENSDART00000192702 | ENSDART00000192702.1 | alcama | activated leukocyte cell adhesion molecule a [Source:NCBI gene;Acc:30194] | eye | decreased size | abnormal | ZDB-PUB-090106-20 |
| OG0001823 | ENSDARG00000116648 | ENSDARG00000116648.1 | ENSDART00000192702 | ENSDART00000192702.1 | alcama | activated leukocyte cell adhesion molecule a [Source:NCBI gene;Acc:30194] | eye | decreased size | abnormal | ZDB-PUB-090106-20 |
| OG0001823 | ENSDARG00000116648 | ENSDARG00000116648.1 | ENSDART00000192702 | ENSDART00000192702.1 | alcama | activated leukocyte cell adhesion molecule a [Source:NCBI gene;Acc:30194] | eye | decreased size | abnormal | ZDB-PUB-090106-20 |
| OG0001823 | ENSDARG00000116648 | ENSDARG00000116648.1 | ENSDART00000192702 | ENSDART00000192702.1 | alcama | activated leukocyte cell adhesion molecule a [Source:NCBI gene;Acc:30194] | eye | decreased diameter | abnormal | ZDB-PUB-090106-20 |
| OG0001823 | ENSDARG00000116648 | ENSDARG00000116648.1 | ENSDART00000192702 | ENSDART00000192702.1 | alcama | activated leukocyte cell adhesion molecule a [Source:NCBI gene;Acc:30194] | eye | mislocalised ventrally | abnormal | ZDB-PUB-090106-20 |
| OG0001823 | ENSDARG00000116648 | ENSDARG00000116648.1 | ENSDART00000192702 | ENSDART00000192702.1 | alcama | activated leukocyte cell adhesion molecule a [Source:NCBI gene;Acc:30194] | eye | decreased size | abnormal | ZDB-PUB-090106-20 |
| OG0001823 | ENSDARG00000116648 | ENSDARG00000116648.1 | ENSDART00000192702 | ENSDART00000192702.1 | alcama | activated leukocyte cell adhesion molecule a [Source:NCBI gene;Acc:30194] | eye | decreased size | abnormal | ZDB-PUB-090106-20 |
| OG0001823 | ENSDARG00000116648 | ENSDARG00000116648.1 | ENSDART00000192702 | ENSDART00000192702.1 | alcama | activated leukocyte cell adhesion molecule a [Source:NCBI gene;Acc:30194] | eye | decreased size | abnormal | ZDB-PUB-090106-20 |
| OG0001823 | ENSDARG00000116648 | ENSDARG00000116648.1 | ENSDART00000192702 | ENSDART00000192702.1 | alcama | activated leukocyte cell adhesion molecule a [Source:NCBI gene;Acc:30194] | eye | mislocalised ventrally | abnormal | ZDB-PUB-090106-20 |
| OG0001823 | ENSDARG00000116648 | ENSDARG00000116648.1 | ENSDART00000192702 | ENSDART00000192702.1 | alcama | activated leukocyte cell adhesion molecule a [Source:NCBI gene;Acc:30194] | eye | decreased diameter | abnormal | ZDB-PUB-090106-20 |
| OG0001823 | ENSDARG00000116648 | ENSDARG00000116648.1 | ENSDART00000192702 | ENSDART00000192702.1 | alcama | activated leukocyte cell adhesion molecule a [Source:NCBI gene;Acc:30194] | eye | decreased diameter | abnormal | ZDB-PUB-090106-20 |
| OG0001823 | ENSDARG00000116648 | ENSDARG00000116648.1 | ENSDART00000192702 | ENSDART00000192702.1 | alcama | activated leukocyte cell adhesion molecule a [Source:NCBI gene;Acc:30194] | eye | mislocalised ventrally | abnormal | ZDB-PUB-090106-20 |
| OG0001823 | ENSDARG00000116648 | ENSDARG00000116648.1 | ENSDART00000192702 | ENSDART00000192702.1 | alcama | activated leukocyte cell adhesion molecule a [Source:NCBI gene;Acc:30194] | eye | decreased size | abnormal | ZDB-PUB-090106-20 |
| OG0001823 | ENSDARG00000116648 | ENSDARG00000116648.1 | ENSDART00000192702 | ENSDART00000192702.1 | alcama | activated leukocyte cell adhesion molecule a [Source:NCBI gene;Acc:30194] | eye | decreased size | abnormal | ZDB-PUB-090106-20 |
| OG0001823 | ENSDARG00000116648 | ENSDARG00000116648.1 | ENSDART00000192702 | ENSDART00000192702.1 | alcama | activated leukocyte cell adhesion molecule a [Source:NCBI gene;Acc:30194] | eye | decreased diameter | abnormal | ZDB-PUB-090106-20 |
| OG0001823 | ENSDARG00000116648 | ENSDARG00000116648.1 | ENSDART00000192702 | ENSDART00000192702.1 | alcama | activated leukocyte cell adhesion molecule a [Source:NCBI gene;Acc:30194] | heart looping | disrupted | abnormal | ZDB-PUB-130410-19 |
| OG0001823 | ENSDARG00000116648 | ENSDARG00000116648.1 | ENSDART00000192702 | ENSDART00000192702.1 | alcama | activated leukocyte cell adhesion molecule a [Source:NCBI gene;Acc:30194] | interhyal cartilage | absent | abnormal | ZDB-PUB-101122-3 |
| OG0001823 | ENSDARG00000116648 | ENSDARG00000116648.1 | ENSDART00000192702 | ENSDART00000192702.1 | alcama | activated leukocyte cell adhesion molecule a [Source:NCBI gene;Acc:30194] | Meckel’s cartilage | fused with | abnormal | ZDB-PUB-101122-3 |
| OG0001823 | ENSDARG00000116648 | ENSDARG00000116648.1 | ENSDART00000192702 | ENSDART00000192702.1 | alcama | activated leukocyte cell adhesion molecule a [Source:NCBI gene;Acc:30194] | Meckel’s cartilage | bent | abnormal | ZDB-PUB-101122-3 |
| OG0001823 | ENSDARG00000116648 | ENSDARG00000116648.1 | ENSDART00000192702 | ENSDART00000192702.1 | alcama | activated leukocyte cell adhesion molecule a [Source:NCBI gene;Acc:30194] | Meckel’s cartilage | protruding | abnormal | ZDB-PUB-101122-3 |
| OG0001823 | ENSDARG00000116648 | ENSDARG00000116648.1 | ENSDART00000192702 | ENSDART00000192702.1 | alcama | activated leukocyte cell adhesion molecule a [Source:NCBI gene;Acc:30194] | Meckel’s cartilage | bent | abnormal | ZDB-PUB-101122-3 |
| OG0001823 | ENSDARG00000116648 | ENSDARG00000116648.1 | ENSDART00000192702 | ENSDART00000192702.1 | alcama | activated leukocyte cell adhesion molecule a [Source:NCBI gene;Acc:30194] | neuron differentiation | arrested | abnormal | ZDB-PUB-090106-20 |
| OG0001823 | ENSDARG00000116648 | ENSDARG00000116648.1 | ENSDART00000192702 | ENSDART00000192702.1 | alcama | activated leukocyte cell adhesion molecule a [Source:NCBI gene;Acc:30194] | neuron differentiation | arrested | abnormal | ZDB-PUB-090106-20 |
| OG0001823 | ENSDARG00000116648 | ENSDARG00000116648.1 | ENSDART00000192702 | ENSDART00000192702.1 | alcama | activated leukocyte cell adhesion molecule a [Source:NCBI gene;Acc:30194] | neuron differentiation | arrested | abnormal | ZDB-PUB-090106-20 |
| OG0001823 | ENSDARG00000116648 | ENSDARG00000116648.1 | ENSDART00000192702 | ENSDART00000192702.1 | alcama | activated leukocyte cell adhesion molecule a [Source:NCBI gene;Acc:30194] | neuron differentiation | arrested | abnormal | ZDB-PUB-090106-20 |
| OG0001823 | ENSDARG00000116648 | ENSDARG00000116648.1 | ENSDART00000192702 | ENSDART00000192702.1 | alcama | activated leukocyte cell adhesion molecule a [Source:NCBI gene;Acc:30194] | neuron differentiation | arrested | abnormal | ZDB-PUB-090106-20 |
| OG0001823 | ENSDARG00000116648 | ENSDARG00000116648.1 | ENSDART00000192702 | ENSDART00000192702.1 | alcama | activated leukocyte cell adhesion molecule a [Source:NCBI gene;Acc:30194] | neuron differentiation | arrested | abnormal | ZDB-PUB-090106-20 |
| OG0001823 | ENSDARG00000116648 | ENSDARG00000116648.1 | ENSDART00000192702 | ENSDART00000192702.1 | alcama | activated leukocyte cell adhesion molecule a [Source:NCBI gene;Acc:30194] | neuron differentiation | arrested | abnormal | ZDB-PUB-090106-20 |
| OG0001823 | ENSDARG00000116648 | ENSDARG00000116648.1 | ENSDART00000192702 | ENSDART00000192702.1 | alcama | activated leukocyte cell adhesion molecule a [Source:NCBI gene;Acc:30194] | neuron differentiation | arrested | abnormal | ZDB-PUB-090106-20 |
| OG0001823 | ENSDARG00000116648 | ENSDARG00000116648.1 | ENSDART00000192702 | ENSDART00000192702.1 | alcama | activated leukocyte cell adhesion molecule a [Source:NCBI gene;Acc:30194] | neuron differentiation | decreased rate | abnormal | ZDB-PUB-090106-20 |
| OG0001823 | ENSDARG00000116648 | ENSDARG00000116648.1 | ENSDART00000192702 | ENSDART00000192702.1 | alcama | activated leukocyte cell adhesion molecule a [Source:NCBI gene;Acc:30194] | neuron differentiation | decreased rate | abnormal | ZDB-PUB-090106-20 |
| OG0001823 | ENSDARG00000116648 | ENSDARG00000116648.1 | ENSDART00000192702 | ENSDART00000192702.1 | alcama | activated leukocyte cell adhesion molecule a [Source:NCBI gene;Acc:30194] | optic nerve head | absent | abnormal | ZDB-PUB-090106-20 |
| OG0001823 | ENSDARG00000116648 | ENSDARG00000116648.1 | ENSDART00000192702 | ENSDART00000192702.1 | alcama | activated leukocyte cell adhesion molecule a [Source:NCBI gene;Acc:30194] | optic nerve head | absent | abnormal | ZDB-PUB-090106-20 |
| OG0001823 | ENSDARG00000116648 | ENSDARG00000116648.1 | ENSDART00000192702 | ENSDART00000192702.1 | alcama | activated leukocyte cell adhesion molecule a [Source:NCBI gene;Acc:30194] | optic nerve head | decreased size | abnormal | ZDB-PUB-090106-20 |
| OG0001823 | ENSDARG00000116648 | ENSDARG00000116648.1 | ENSDART00000192702 | ENSDART00000192702.1 | alcama | activated leukocyte cell adhesion molecule a [Source:NCBI gene;Acc:30194] | optic nerve head | decreased size | abnormal | ZDB-PUB-090106-20 |
| OG0001823 | ENSDARG00000116648 | ENSDARG00000116648.1 | ENSDART00000192702 | ENSDART00000192702.1 | alcama | activated leukocyte cell adhesion molecule a [Source:NCBI gene;Acc:30194] | pericardial cavity | increased size | abnormal | ZDB-PUB-090106-20 |
| OG0001823 | ENSDARG00000116648 | ENSDARG00000116648.1 | ENSDART00000192702 | ENSDART00000192702.1 | alcama | activated leukocyte cell adhesion molecule a [Source:NCBI gene;Acc:30194] | pericardial cavity | increased size | abnormal | ZDB-PUB-090106-20 |
| OG0001823 | ENSDARG00000116648 | ENSDARG00000116648.1 | ENSDART00000192702 | ENSDART00000192702.1 | alcama | activated leukocyte cell adhesion molecule a [Source:NCBI gene;Acc:30194] | pericardium | edematous | abnormal | ZDB-PUB-101122-3 |
| OG0001823 | ENSDARG00000116648 | ENSDARG00000116648.1 | ENSDART00000192702 | ENSDART00000192702.1 | alcama | activated leukocyte cell adhesion molecule a [Source:NCBI gene;Acc:30194] | pharyngeal pouch | malformed | abnormal | ZDB-PUB-130213-8 |
| OG0001823 | ENSDARG00000116648 | ENSDARG00000116648.1 | ENSDART00000192702 | ENSDART00000192702.1 | alcama | activated leukocyte cell adhesion molecule a [Source:NCBI gene;Acc:30194] | pharyngeal pouch | decreased occurrence | abnormal | ZDB-PUB-130213-8 |
| OG0001823 | ENSDARG00000116648 | ENSDARG00000116648.1 | ENSDART00000192702 | ENSDART00000192702.1 | alcama | activated leukocyte cell adhesion molecule a [Source:NCBI gene;Acc:30194] | pharyngeal pouch | process quality | abnormal | ZDB-PUB-130213-8 |
| OG0001823 | ENSDARG00000116648 | ENSDARG00000116648.1 | ENSDART00000192702 | ENSDART00000192702.1 | alcama | activated leukocyte cell adhesion molecule a [Source:NCBI gene;Acc:30194] | retina morphogenesis in camera-type eye | disrupted | abnormal | ZDB-PUB-090106-20 |
| OG0001823 | ENSDARG00000116648 | ENSDARG00000116648.1 | ENSDART00000192702 | ENSDART00000192702.1 | alcama | activated leukocyte cell adhesion molecule a [Source:NCBI gene;Acc:30194] | retina morphogenesis in camera-type eye | disrupted | abnormal | ZDB-PUB-090106-20 |
| OG0001823 | ENSDARG00000116648 | ENSDARG00000116648.1 | ENSDART00000192702 | ENSDART00000192702.1 | alcama | activated leukocyte cell adhesion molecule a [Source:NCBI gene;Acc:30194] | retina morphogenesis in camera-type eye | disrupted | abnormal | ZDB-PUB-090106-20 |
| OG0001823 | ENSDARG00000116648 | ENSDARG00000116648.1 | ENSDART00000192702 | ENSDART00000192702.1 | alcama | activated leukocyte cell adhesion molecule a [Source:NCBI gene;Acc:30194] | retina morphogenesis in camera-type eye | disrupted | abnormal | ZDB-PUB-090106-20 |
| OG0001823 | ENSDARG00000116648 | ENSDARG00000116648.1 | ENSDART00000192702 | ENSDART00000192702.1 | alcama | activated leukocyte cell adhesion molecule a [Source:NCBI gene;Acc:30194] | retina morphogenesis in camera-type eye | disrupted | abnormal | ZDB-PUB-090106-20 |
| OG0001823 | ENSDARG00000116648 | ENSDARG00000116648.1 | ENSDART00000192702 | ENSDART00000192702.1 | alcama | activated leukocyte cell adhesion molecule a [Source:NCBI gene;Acc:30194] | retina morphogenesis in camera-type eye | disrupted | abnormal | ZDB-PUB-090106-20 |
| OG0001823 | ENSDARG00000116648 | ENSDARG00000116648.1 | ENSDART00000192702 | ENSDART00000192702.1 | alcama | activated leukocyte cell adhesion molecule a [Source:NCBI gene;Acc:30194] | retina morphogenesis in camera-type eye | disrupted | abnormal | ZDB-PUB-090106-20 |
| OG0001823 | ENSDARG00000116648 | ENSDARG00000116648.1 | ENSDART00000192702 | ENSDART00000192702.1 | alcama | activated leukocyte cell adhesion molecule a [Source:NCBI gene;Acc:30194] | retina morphogenesis in camera-type eye | disrupted | abnormal | ZDB-PUB-090106-20 |
| OG0001823 | ENSDARG00000116648 | ENSDARG00000116648.1 | ENSDART00000192702 | ENSDART00000192702.1 | alcama | activated leukocyte cell adhesion molecule a [Source:NCBI gene;Acc:30194] | retina morphogenesis in camera-type eye | disrupted | abnormal | ZDB-PUB-090106-20 |
| OG0001823 | ENSDARG00000116648 | ENSDARG00000116648.1 | ENSDART00000192702 | ENSDART00000192702.1 | alcama | activated leukocyte cell adhesion molecule a [Source:NCBI gene;Acc:30194] | retina morphogenesis in camera-type eye | disrupted | abnormal | ZDB-PUB-090106-20 |
| OG0001823 | ENSDARG00000116648 | ENSDARG00000116648.1 | ENSDART00000192702 | ENSDART00000192702.1 | alcama | activated leukocyte cell adhesion molecule a [Source:NCBI gene;Acc:30194] | retinal ganglion cell | decreased amount | abnormal | ZDB-PUB-090106-20 |
| OG0001823 | ENSDARG00000116648 | ENSDARG00000116648.1 | ENSDART00000192702 | ENSDART00000192702.1 | alcama | activated leukocyte cell adhesion molecule a [Source:NCBI gene;Acc:30194] | retinal ganglion cell | decreased amount | abnormal | ZDB-PUB-090106-20 |
| OG0001823 | ENSDARG00000116648 | ENSDARG00000116648.1 | ENSDART00000192702 | ENSDART00000192702.1 | alcama | activated leukocyte cell adhesion molecule a [Source:NCBI gene;Acc:30194] | retinal ganglion cell | decreased amount | abnormal | ZDB-PUB-090106-20 |
| OG0001823 | ENSDARG00000116648 | ENSDARG00000116648.1 | ENSDART00000192702 | ENSDART00000192702.1 | alcama | activated leukocyte cell adhesion molecule a [Source:NCBI gene;Acc:30194] | retinal ganglion cell | decreased amount | abnormal | ZDB-PUB-090106-20 |
| OG0001823 | ENSDARG00000116648 | ENSDARG00000116648.1 | ENSDART00000192702 | ENSDART00000192702.1 | alcama | activated leukocyte cell adhesion molecule a [Source:NCBI gene;Acc:30194] | retinal ganglion cell | decreased amount | abnormal | ZDB-PUB-090106-20 |
| OG0001823 | ENSDARG00000116648 | ENSDARG00000116648.1 | ENSDART00000192702 | ENSDART00000192702.1 | alcama | activated leukocyte cell adhesion molecule a [Source:NCBI gene;Acc:30194] | retinal ganglion cell | decreased amount | abnormal | ZDB-PUB-090106-20 |
| OG0001823 | ENSDARG00000116648 | ENSDARG00000116648.1 | ENSDART00000192702 | ENSDART00000192702.1 | alcama | activated leukocyte cell adhesion molecule a [Source:NCBI gene;Acc:30194] | retinal ganglion cell | decreased amount | abnormal | ZDB-PUB-090106-20 |
| OG0001823 | ENSDARG00000116648 | ENSDARG00000116648.1 | ENSDART00000192702 | ENSDART00000192702.1 | alcama | activated leukocyte cell adhesion molecule a [Source:NCBI gene;Acc:30194] | retinal ganglion cell | decreased amount | abnormal | ZDB-PUB-090106-20 |
| OG0001823 | ENSDARG00000116648 | ENSDARG00000116648.1 | ENSDART00000192702 | ENSDART00000192702.1 | alcama | activated leukocyte cell adhesion molecule a [Source:NCBI gene;Acc:30194] | retinal ganglion cell | decreased amount | abnormal | ZDB-PUB-090106-20 |
| OG0001823 | ENSDARG00000116648 | ENSDARG00000116648.1 | ENSDART00000192702 | ENSDART00000192702.1 | alcama | activated leukocyte cell adhesion molecule a [Source:NCBI gene;Acc:30194] | retinal ganglion cell | decreased amount | abnormal | ZDB-PUB-090106-20 |
| OG0001823 | ENSDARG00000116648 | ENSDARG00000116648.1 | ENSDART00000192702 | ENSDART00000192702.1 | alcama | activated leukocyte cell adhesion molecule a [Source:NCBI gene;Acc:30194] | retinal ganglion cell | decreased amount | abnormal | ZDB-PUB-090106-20 |
| OG0001823 | ENSDARG00000116648 | ENSDARG00000116648.1 | ENSDART00000192702 | ENSDART00000192702.1 | alcama | activated leukocyte cell adhesion molecule a [Source:NCBI gene;Acc:30194] | retinal ganglion cell | decreased amount | abnormal | ZDB-PUB-090106-20 |
| OG0001823 | ENSDARG00000116648 | ENSDARG00000116648.1 | ENSDART00000192702 | ENSDART00000192702.1 | alcama | activated leukocyte cell adhesion molecule a [Source:NCBI gene;Acc:30194] | retinal ganglion cell layer | morphology | abnormal | ZDB-PUB-090106-20 |
| OG0001823 | ENSDARG00000116648 | ENSDARG00000116648.1 | ENSDART00000192702 | ENSDART00000192702.1 | alcama | activated leukocyte cell adhesion molecule a [Source:NCBI gene;Acc:30194] | retinal ganglion cell layer | morphology | abnormal | ZDB-PUB-090106-20 |
| OG0001823 | ENSDARG00000116648 | ENSDARG00000116648.1 | ENSDART00000192702 | ENSDART00000192702.1 | alcama | activated leukocyte cell adhesion molecule a [Source:NCBI gene;Acc:30194] | retinal inner nuclear layer | decreased amount | abnormal | ZDB-PUB-090106-20 |
| OG0001823 | ENSDARG00000116648 | ENSDARG00000116648.1 | ENSDART00000192702 | ENSDART00000192702.1 | alcama | activated leukocyte cell adhesion molecule a [Source:NCBI gene;Acc:30194] | retinal inner nuclear layer | decreased amount | abnormal | ZDB-PUB-090106-20 |
| OG0001823 | ENSDARG00000116648 | ENSDARG00000116648.1 | ENSDART00000192702 | ENSDART00000192702.1 | alcama | activated leukocyte cell adhesion molecule a [Source:NCBI gene;Acc:30194] | retinal neural layer | apoptotic | abnormal | ZDB-PUB-090106-20 |
| OG0001823 | ENSDARG00000116648 | ENSDARG00000116648.1 | ENSDART00000192702 | ENSDART00000192702.1 | alcama | activated leukocyte cell adhesion molecule a [Source:NCBI gene;Acc:30194] | retinal neural layer | apoptotic | abnormal | ZDB-PUB-090106-20 |
| OG0001823 | ENSDARG00000116648 | ENSDARG00000116648.1 | ENSDART00000192702 | ENSDART00000192702.1 | alcama | activated leukocyte cell adhesion molecule a [Source:NCBI gene;Acc:30194] | retinal rod cell differentiation | process quality | abnormal | ZDB-PUB-090106-20 |
| OG0001823 | ENSDARG00000116648 | ENSDARG00000116648.1 | ENSDART00000192702 | ENSDART00000192702.1 | alcama | activated leukocyte cell adhesion molecule a [Source:NCBI gene;Acc:30194] | retinal rod cell differentiation | process quality | abnormal | ZDB-PUB-090106-20 |
| OG0001823 | ENSDARG00000116648 | ENSDARG00000116648.1 | ENSDART00000192702 | ENSDART00000192702.1 | alcama | activated leukocyte cell adhesion molecule a [Source:NCBI gene;Acc:30194] | retinal rod cell differentiation | delayed | abnormal | ZDB-PUB-090106-20 |
| OG0001823 | ENSDARG00000116648 | ENSDARG00000116648.1 | ENSDART00000192702 | ENSDART00000192702.1 | alcama | activated leukocyte cell adhesion molecule a [Source:NCBI gene;Acc:30194] | retinal rod cell differentiation | delayed | abnormal | ZDB-PUB-090106-20 |
| OG0001823 | ENSDARG00000116648 | ENSDARG00000116648.1 | ENSDART00000192702 | ENSDART00000192702.1 | alcama | activated leukocyte cell adhesion molecule a [Source:NCBI gene;Acc:30194] | splanchnocranium | decreased length | abnormal | ZDB-PUB-101122-3 |
| OG0001823 | ENSDARG00000116648 | ENSDARG00000116648.1 | ENSDART00000192702 | ENSDART00000192702.1 | alcama | activated leukocyte cell adhesion molecule a [Source:NCBI gene;Acc:30194] | swim bladder | absent | abnormal | ZDB-PUB-101122-3 |
| OG0001823 | ENSDARG00000116648 | ENSDARG00000116648.1 | ENSDART00000192702 | ENSDART00000192702.1 | alcama | activated leukocyte cell adhesion molecule a [Source:NCBI gene;Acc:30194] | ventral mandibular arch | decreased size | abnormal | ZDB-PUB-090106-20 |
| OG0001823 | ENSDARG00000116648 | ENSDARG00000116648.1 | ENSDART00000192702 | ENSDART00000192702.1 | alcama | activated leukocyte cell adhesion molecule a [Source:NCBI gene;Acc:30194] | ventral mandibular arch | decreased size | abnormal | ZDB-PUB-090106-20 |
| OG0001823 | ENSDARG00000116648 | ENSDARG00000116648.1 | ENSDART00000192702 | ENSDART00000192702.1 | alcama | activated leukocyte cell adhesion molecule a [Source:NCBI gene;Acc:30194] | ventral mandibular arch | decreased length | abnormal | ZDB-PUB-101122-3 |
| OG0001823 | ENSDARG00000116648 | ENSDARG00000116648.1 | ENSDART00000192702 | ENSDART00000192702.1 | alcama | activated leukocyte cell adhesion molecule a [Source:NCBI gene;Acc:30194] | whole organism | absent | abnormal | ZDB-PUB-190405-15 |
| OG0001823 | ENSDARG00000116648 | ENSDARG00000116648.1 | ENSDART00000192702 | ENSDART00000192702.1 | alcama | activated leukocyte cell adhesion molecule a [Source:NCBI gene;Acc:30194] | whole organism | decreased amount | abnormal | ZDB-PUB-190405-15 |
| OG0001823 | ENSDARG00000116648 | ENSDARG00000116648.1 | ENSDART00000192702 | ENSDART00000192702.1 | alcama | activated leukocyte cell adhesion molecule a [Source:NCBI gene;Acc:30194] | whole organism | decreased size | abnormal | ZDB-PUB-090106-20 |
| OG0001823 | ENSDARG00000116648 | ENSDARG00000116648.1 | ENSDART00000192702 | ENSDART00000192702.1 | alcama | activated leukocyte cell adhesion molecule a [Source:NCBI gene;Acc:30194] | whole organism | decreased size | abnormal | ZDB-PUB-090106-20 |
| OG0001823 | ENSDARG00000058538 | ENSDARG00000058538.5 | ENSDART00000101204 | ENSDART00000101204.4 | alcamb | activated leukocyte cell adhesion molecule b [Source:ZFIN;Acc:ZDB-GENE-030131-1768] | axonogenesis involved in innervation | disrupted | abnormal | ZDB-PUB-090106-20 |
| OG0001823 | ENSDARG00000058538 | ENSDARG00000058538.5 | ENSDART00000101204 | ENSDART00000101204.4 | alcamb | activated leukocyte cell adhesion molecule b [Source:ZFIN;Acc:ZDB-GENE-030131-1768] | dorsal convergence | delayed | abnormal | ZDB-PUB-091221-5 |
| OG0001823 | ENSDARG00000058538 | ENSDARG00000058538.5 | ENSDART00000101204 | ENSDART00000101204.4 | alcamb | activated leukocyte cell adhesion molecule b [Source:ZFIN;Acc:ZDB-GENE-030131-1768] | forebrain cell migration | delayed | abnormal | ZDB-PUB-091221-5 |
| OG0001823 | ENSDARG00000058538 | ENSDARG00000058538.5 | ENSDART00000101204 | ENSDART00000101204.4 | alcamb | activated leukocyte cell adhesion molecule b [Source:ZFIN;Acc:ZDB-GENE-030131-1768] | forebrain neural keel | physical object quality | abnormal | ZDB-PUB-091221-5 |
| OG0001823 | ENSDARG00000058538 | ENSDARG00000058538.5 | ENSDART00000101204 | ENSDART00000101204.4 | alcamb | activated leukocyte cell adhesion molecule b [Source:ZFIN;Acc:ZDB-GENE-030131-1768] | neuron differentiation | decreased rate | abnormal | ZDB-PUB-090106-20 |
| OG0001823 | ENSDARG00000058538 | ENSDARG00000058538.5 | ENSDART00000101204 | ENSDART00000101204.4 | alcamb | activated leukocyte cell adhesion molecule b [Source:ZFIN;Acc:ZDB-GENE-030131-1768] | neuron differentiation | decreased rate | abnormal | ZDB-PUB-090106-20 |
| OG0001823 | ENSDARG00000058538 | ENSDARG00000058538.5 | ENSDART00000101204 | ENSDART00000101204.4 | alcamb | activated leukocyte cell adhesion molecule b [Source:ZFIN;Acc:ZDB-GENE-030131-1768] | retinal ganglion cell | decreased amount | abnormal | ZDB-PUB-090106-20 |
| OG0001823 | ENSDARG00000058538 | ENSDARG00000058538.5 | ENSDART00000101204 | ENSDART00000101204.4 | alcamb | activated leukocyte cell adhesion molecule b [Source:ZFIN;Acc:ZDB-GENE-030131-1768] | retinal ganglion cell | decreased amount | abnormal | ZDB-PUB-090106-20 |
| OG0001823 | ENSDARG00000058538 | ENSDARG00000058538.5 | ENSDART00000101204 | ENSDART00000101204.4 | alcamb | activated leukocyte cell adhesion molecule b [Source:ZFIN;Acc:ZDB-GENE-030131-1768] | retinal ganglion cell axon guidance | disrupted | abnormal | ZDB-PUB-090106-20 |
| OG0009762 | ENSDARG00000079015 | ENSDARG00000079015.4 | ENSDART00000111472 | ENSDART00000111472.3 | brca2 | BRCA2 DNA repair associated [Source:ZFIN;Acc:ZDB-GENE-060510-3] | female gonad development | arrested | abnormal | ZDB-PUB-101027-46 |
| OG0009762 | ENSDARG00000079015 | ENSDARG00000079015.4 | ENSDART00000111472 | ENSDART00000111472.3 | brca2 | BRCA2 DNA repair associated [Source:ZFIN;Acc:ZDB-GENE-060510-3] | female gonad development | arrested | abnormal | ZDB-PUB-101027-46 |
| OG0009762 | ENSDARG00000079015 | ENSDARG00000079015.4 | ENSDART00000111472 | ENSDART00000111472.3 | brca2 | BRCA2 DNA repair associated [Source:ZFIN;Acc:ZDB-GENE-060510-3] | female gonad development | arrested | abnormal | ZDB-PUB-101027-46 |
| OG0009762 | ENSDARG00000079015 | ENSDARG00000079015.4 | ENSDART00000111472 | ENSDART00000111472.3 | brca2 | BRCA2 DNA repair associated [Source:ZFIN;Acc:ZDB-GENE-060510-3] | female organism | absent | abnormal | ZDB-PUB-181213-8 |
| OG0009762 | ENSDARG00000079015 | ENSDARG00000079015.4 | ENSDART00000111472 | ENSDART00000111472.3 | brca2 | BRCA2 DNA repair associated [Source:ZFIN;Acc:ZDB-GENE-060510-3] | female sex determination | arrested | abnormal | ZDB-PUB-101027-46 |
| OG0009762 | ENSDARG00000079015 | ENSDARG00000079015.4 | ENSDART00000111472 | ENSDART00000111472.3 | brca2 | BRCA2 DNA repair associated [Source:ZFIN;Acc:ZDB-GENE-060510-3] | female sex determination | decreased occurrence | abnormal | ZDB-PUB-181213-8 |
| OG0009762 | ENSDARG00000079015 | ENSDARG00000079015.4 | ENSDART00000111472 | ENSDART00000111472.3 | brca2 | BRCA2 DNA repair associated [Source:ZFIN;Acc:ZDB-GENE-060510-3] | heart | edematous | abnormal | ZDB-PUB-170607-8 |
| OG0009762 | ENSDARG00000079015 | ENSDARG00000079015.4 | ENSDART00000111472 | ENSDART00000111472.3 | brca2 | BRCA2 DNA repair associated [Source:ZFIN;Acc:ZDB-GENE-060510-3] | heart | edematous | abnormal | ZDB-PUB-170607-8 |
| OG0009762 | ENSDARG00000079015 | ENSDARG00000079015.4 | ENSDART00000111472 | ENSDART00000111472.3 | brca2 | BRCA2 DNA repair associated [Source:ZFIN;Acc:ZDB-GENE-060510-3] | heart | edematous | abnormal | ZDB-PUB-170607-8 |
| OG0009762 | ENSDARG00000079015 | ENSDARG00000079015.4 | ENSDART00000111472 | ENSDART00000111472.3 | brca2 | BRCA2 DNA repair associated [Source:ZFIN;Acc:ZDB-GENE-060510-3] | interrenal primordium | increased amount | abnormal | ZDB-PUB-180502-5 |
| OG0009762 | ENSDARG00000079015 | ENSDARG00000079015.4 | ENSDART00000111472 | ENSDART00000111472.3 | brca2 | BRCA2 DNA repair associated [Source:ZFIN;Acc:ZDB-GENE-060510-3] | interrenal primordium | increased size | abnormal | ZDB-PUB-170607-8 |
| OG0009762 | ENSDARG00000079015 | ENSDARG00000079015.4 | ENSDART00000111472 | ENSDART00000111472.3 | brca2 | BRCA2 DNA repair associated [Source:ZFIN;Acc:ZDB-GENE-060510-3] | interrenal primordium | increased size | abnormal | ZDB-PUB-170607-8 |
| OG0009762 | ENSDARG00000079015 | ENSDARG00000079015.4 | ENSDART00000111472 | ENSDART00000111472.3 | brca2 | BRCA2 DNA repair associated [Source:ZFIN;Acc:ZDB-GENE-060510-3] | interrenal primordium | increased size | abnormal | ZDB-PUB-170607-8 |
| OG0009762 | ENSDARG00000079015 | ENSDARG00000079015.4 | ENSDART00000111472 | ENSDART00000111472.3 | brca2 | BRCA2 DNA repair associated [Source:ZFIN;Acc:ZDB-GENE-060510-3] | interrenal primordium | increased size | abnormal | ZDB-PUB-170607-8 |
| OG0009762 | ENSDARG00000079015 | ENSDARG00000079015.4 | ENSDART00000111472 | ENSDART00000111472.3 | brca2 | BRCA2 DNA repair associated [Source:ZFIN;Acc:ZDB-GENE-060510-3] | interrenal primordium | increased size | abnormal | ZDB-PUB-170607-8 |
| OG0009762 | ENSDARG00000079015 | ENSDARG00000079015.4 | ENSDART00000111472 | ENSDART00000111472.3 | brca2 | BRCA2 DNA repair associated [Source:ZFIN;Acc:ZDB-GENE-060510-3] | interrenal primordium | increased distribution | abnormal | ZDB-PUB-170607-8 |
| OG0009762 | ENSDARG00000079015 | ENSDARG00000079015.4 | ENSDART00000111472 | ENSDART00000111472.3 | brca2 | BRCA2 DNA repair associated [Source:ZFIN;Acc:ZDB-GENE-060510-3] | interrenal primordium | increased distribution | abnormal | ZDB-PUB-170607-8 |
| OG0009762 | ENSDARG00000079015 | ENSDARG00000079015.4 | ENSDART00000111472 | ENSDART00000111472.3 | brca2 | BRCA2 DNA repair associated [Source:ZFIN;Acc:ZDB-GENE-060510-3] | interrenal primordium | increased amount | abnormal | ZDB-PUB-170607-8 |
| OG0009762 | ENSDARG00000079015 | ENSDARG00000079015.4 | ENSDART00000111472 | ENSDART00000111472.3 | brca2 | BRCA2 DNA repair associated [Source:ZFIN;Acc:ZDB-GENE-060510-3] | interrenal primordium | increased distribution | abnormal | ZDB-PUB-170607-8 |
| OG0009762 | ENSDARG00000079015 | ENSDARG00000079015.4 | ENSDART00000111472 | ENSDART00000111472.3 | brca2 | BRCA2 DNA repair associated [Source:ZFIN;Acc:ZDB-GENE-060510-3] | interrenal primordium | increased amount | abnormal | ZDB-PUB-170607-8 |
| OG0009762 | ENSDARG00000079015 | ENSDARG00000079015.4 | ENSDART00000111472 | ENSDART00000111472.3 | brca2 | BRCA2 DNA repair associated [Source:ZFIN;Acc:ZDB-GENE-060510-3] | interrenal primordium | increased distribution | abnormal | ZDB-PUB-170607-8 |
| OG0009762 | ENSDARG00000079015 | ENSDARG00000079015.4 | ENSDART00000111472 | ENSDART00000111472.3 | brca2 | BRCA2 DNA repair associated [Source:ZFIN;Acc:ZDB-GENE-060510-3] | interrenal primordium | increased amount | abnormal | ZDB-PUB-170607-8 |
| OG0009762 | ENSDARG00000079015 | ENSDARG00000079015.4 | ENSDART00000111472 | ENSDART00000111472.3 | brca2 | BRCA2 DNA repair associated [Source:ZFIN;Acc:ZDB-GENE-060510-3] | interrenal primordium | increased size | abnormal | ZDB-PUB-170607-8 |
| OG0009762 | ENSDARG00000079015 | ENSDARG00000079015.4 | ENSDART00000111472 | ENSDART00000111472.3 | brca2 | BRCA2 DNA repair associated [Source:ZFIN;Acc:ZDB-GENE-060510-3] | male meiotic nuclear division | arrested | abnormal | ZDB-PUB-101027-46 |
| OG0009762 | ENSDARG00000079015 | ENSDARG00000079015.4 | ENSDART00000111472 | ENSDART00000111472.3 | brca2 | BRCA2 DNA repair associated [Source:ZFIN;Acc:ZDB-GENE-060510-3] | male organism | increased amount | abnormal | ZDB-PUB-181213-8 |
| OG0009762 | ENSDARG00000079015 | ENSDARG00000079015.4 | ENSDART00000111472 | ENSDART00000111472.3 | brca2 | BRCA2 DNA repair associated [Source:ZFIN;Acc:ZDB-GENE-060510-3] | male organism | decreased fertility | abnormal | ZDB-PUB-181213-8 |
| OG0009762 | ENSDARG00000079015 | ENSDARG00000079015.4 | ENSDART00000111472 | ENSDART00000111472.3 | brca2 | BRCA2 DNA repair associated [Source:ZFIN;Acc:ZDB-GENE-060510-3] | male sex determination | increased occurrence | abnormal | ZDB-PUB-181213-8 |
| OG0009762 | ENSDARG00000079015 | ENSDARG00000079015.4 | ENSDART00000111472 | ENSDART00000111472.3 | brca2 | BRCA2 DNA repair associated [Source:ZFIN;Acc:ZDB-GENE-060510-3] | ovary | absent | abnormal | ZDB-PUB-101027-46 |
| OG0009762 | ENSDARG00000079015 | ENSDARG00000079015.4 | ENSDART00000111472 | ENSDART00000111472.3 | brca2 | BRCA2 DNA repair associated [Source:ZFIN;Acc:ZDB-GENE-060510-3] | pericardium | edematous | abnormal | ZDB-PUB-180502-5 |
| OG0009762 | ENSDARG00000079015 | ENSDARG00000079015.4 | ENSDART00000111472 | ENSDART00000111472.3 | brca2 | BRCA2 DNA repair associated [Source:ZFIN;Acc:ZDB-GENE-060510-3] | pleuroperitoneal cavity | edematous | abnormal | ZDB-PUB-180502-5 |
| OG0009762 | ENSDARG00000079015 | ENSDARG00000079015.4 | ENSDART00000111472 | ENSDART00000111472.3 | brca2 | BRCA2 DNA repair associated [Source:ZFIN;Acc:ZDB-GENE-060510-3] | podocyte | absent | abnormal | ZDB-PUB-180502-5 |
| OG0009762 | ENSDARG00000079015 | ENSDARG00000079015.4 | ENSDART00000111472 | ENSDART00000111472.3 | brca2 | BRCA2 DNA repair associated [Source:ZFIN;Acc:ZDB-GENE-060510-3] | podocyte | decreased amount | abnormal | ZDB-PUB-180502-5 |
| OG0009762 | ENSDARG00000079015 | ENSDARG00000079015.4 | ENSDART00000111472 | ENSDART00000111472.3 | brca2 | BRCA2 DNA repair associated [Source:ZFIN;Acc:ZDB-GENE-060510-3] | podocyte | absent | abnormal | ZDB-PUB-180502-5 |
| OG0009762 | ENSDARG00000079015 | ENSDARG00000079015.4 | ENSDART00000111472 | ENSDART00000111472.3 | brca2 | BRCA2 DNA repair associated [Source:ZFIN;Acc:ZDB-GENE-060510-3] | podocyte | absent | abnormal | ZDB-PUB-180502-5 |
| OG0009762 | ENSDARG00000079015 | ENSDARG00000079015.4 | ENSDART00000111472 | ENSDART00000111472.3 | brca2 | BRCA2 DNA repair associated [Source:ZFIN;Acc:ZDB-GENE-060510-3] | podocyte | absent | abnormal | ZDB-PUB-180502-5 |
| OG0009762 | ENSDARG00000079015 | ENSDARG00000079015.4 | ENSDART00000111472 | ENSDART00000111472.3 | brca2 | BRCA2 DNA repair associated [Source:ZFIN;Acc:ZDB-GENE-060510-3] | pronephric glomerulus development | decreased occurrence | abnormal | ZDB-PUB-170607-8 |
| OG0009762 | ENSDARG00000079015 | ENSDARG00000079015.4 | ENSDART00000111472 | ENSDART00000111472.3 | brca2 | BRCA2 DNA repair associated [Source:ZFIN;Acc:ZDB-GENE-060510-3] | pronephric glomerulus development | decreased occurrence | abnormal | ZDB-PUB-170607-8 |
| OG0009762 | ENSDARG00000079015 | ENSDARG00000079015.4 | ENSDART00000111472 | ENSDART00000111472.3 | brca2 | BRCA2 DNA repair associated [Source:ZFIN;Acc:ZDB-GENE-060510-3] | pronephric glomerulus development | decreased occurrence | abnormal | ZDB-PUB-170607-8 |
| OG0009762 | ENSDARG00000079015 | ENSDARG00000079015.4 | ENSDART00000111472 | ENSDART00000111472.3 | brca2 | BRCA2 DNA repair associated [Source:ZFIN;Acc:ZDB-GENE-060510-3] | pronephric glomerulus development | decreased occurrence | abnormal | ZDB-PUB-170607-8 |
| OG0009762 | ENSDARG00000079015 | ENSDARG00000079015.4 | ENSDART00000111472 | ENSDART00000111472.3 | brca2 | BRCA2 DNA repair associated [Source:ZFIN;Acc:ZDB-GENE-060510-3] | pronephric glomerulus development | decreased occurrence | abnormal | ZDB-PUB-170607-8 |
| OG0009762 | ENSDARG00000079015 | ENSDARG00000079015.4 | ENSDART00000111472 | ENSDART00000111472.3 | brca2 | BRCA2 DNA repair associated [Source:ZFIN;Acc:ZDB-GENE-060510-3] | pronephric glomerulus development | decreased occurrence | abnormal | ZDB-PUB-170607-8 |
| OG0009762 | ENSDARG00000079015 | ENSDARG00000079015.4 | ENSDART00000111472 | ENSDART00000111472.3 | brca2 | BRCA2 DNA repair associated [Source:ZFIN;Acc:ZDB-GENE-060510-3] | pronephric glomerulus development | decreased occurrence | abnormal | ZDB-PUB-170607-8 |
| OG0009762 | ENSDARG00000079015 | ENSDARG00000079015.4 | ENSDART00000111472 | ENSDART00000111472.3 | brca2 | BRCA2 DNA repair associated [Source:ZFIN;Acc:ZDB-GENE-060510-3] | pronephric glomerulus development | decreased occurrence | abnormal | ZDB-PUB-170607-8 |
| OG0009762 | ENSDARG00000079015 | ENSDARG00000079015.4 | ENSDART00000111472 | ENSDART00000111472.3 | brca2 | BRCA2 DNA repair associated [Source:ZFIN;Acc:ZDB-GENE-060510-3] | pronephric glomerulus development | decreased occurrence | abnormal | ZDB-PUB-170607-8 |
| OG0009762 | ENSDARG00000079015 | ENSDARG00000079015.4 | ENSDART00000111472 | ENSDART00000111472.3 | brca2 | BRCA2 DNA repair associated [Source:ZFIN;Acc:ZDB-GENE-060510-3] | pronephric glomerulus development | decreased occurrence | abnormal | ZDB-PUB-170607-8 |
| OG0009762 | ENSDARG00000079015 | ENSDARG00000079015.4 | ENSDART00000111472 | ENSDART00000111472.3 | brca2 | BRCA2 DNA repair associated [Source:ZFIN;Acc:ZDB-GENE-060510-3] | pronephric podocyte | decreased amount | abnormal | ZDB-PUB-170607-8 |
| OG0009762 | ENSDARG00000079015 | ENSDARG00000079015.4 | ENSDART00000111472 | ENSDART00000111472.3 | brca2 | BRCA2 DNA repair associated [Source:ZFIN;Acc:ZDB-GENE-060510-3] | pronephric podocyte | absent | abnormal | ZDB-PUB-170607-8 |
| OG0009762 | ENSDARG00000079015 | ENSDARG00000079015.4 | ENSDART00000111472 | ENSDART00000111472.3 | brca2 | BRCA2 DNA repair associated [Source:ZFIN;Acc:ZDB-GENE-060510-3] | pronephric podocyte | absent | abnormal | ZDB-PUB-170607-8 |
| OG0009762 | ENSDARG00000079015 | ENSDARG00000079015.4 | ENSDART00000111472 | ENSDART00000111472.3 | brca2 | BRCA2 DNA repair associated [Source:ZFIN;Acc:ZDB-GENE-060510-3] | pronephric podocyte | decreased amount | abnormal | ZDB-PUB-170607-8 |
| OG0009762 | ENSDARG00000079015 | ENSDARG00000079015.4 | ENSDART00000111472 | ENSDART00000111472.3 | brca2 | BRCA2 DNA repair associated [Source:ZFIN;Acc:ZDB-GENE-060510-3] | pronephric podocyte | decreased amount | abnormal | ZDB-PUB-170607-8 |
| OG0009762 | ENSDARG00000079015 | ENSDARG00000079015.4 | ENSDART00000111472 | ENSDART00000111472.3 | brca2 | BRCA2 DNA repair associated [Source:ZFIN;Acc:ZDB-GENE-060510-3] | pronephric podocyte | decreased amount | abnormal | ZDB-PUB-170607-8 |
| OG0009762 | ENSDARG00000079015 | ENSDARG00000079015.4 | ENSDART00000111472 | ENSDART00000111472.3 | brca2 | BRCA2 DNA repair associated [Source:ZFIN;Acc:ZDB-GENE-060510-3] | pronephric podocyte | decreased amount | abnormal | ZDB-PUB-170607-8 |
| OG0009762 | ENSDARG00000079015 | ENSDARG00000079015.4 | ENSDART00000111472 | ENSDART00000111472.3 | brca2 | BRCA2 DNA repair associated [Source:ZFIN;Acc:ZDB-GENE-060510-3] | pronephric podocyte | decreased amount | abnormal | ZDB-PUB-170607-8 |
| OG0009762 | ENSDARG00000079015 | ENSDARG00000079015.4 | ENSDART00000111472 | ENSDART00000111472.3 | brca2 | BRCA2 DNA repair associated [Source:ZFIN;Acc:ZDB-GENE-060510-3] | pronephric podocyte | absent | abnormal | ZDB-PUB-170607-8 |
| OG0009762 | ENSDARG00000079015 | ENSDARG00000079015.4 | ENSDART00000111472 | ENSDART00000111472.3 | brca2 | BRCA2 DNA repair associated [Source:ZFIN;Acc:ZDB-GENE-060510-3] | pronephric podocyte | absent | abnormal | ZDB-PUB-170607-8 |
| OG0009762 | ENSDARG00000079015 | ENSDARG00000079015.4 | ENSDART00000111472 | ENSDART00000111472.3 | brca2 | BRCA2 DNA repair associated [Source:ZFIN;Acc:ZDB-GENE-060510-3] | pronephric podocyte | absent | abnormal | ZDB-PUB-170607-8 |
| OG0009762 | ENSDARG00000079015 | ENSDARG00000079015.4 | ENSDART00000111472 | ENSDART00000111472.3 | brca2 | BRCA2 DNA repair associated [Source:ZFIN;Acc:ZDB-GENE-060510-3] | pronephric podocyte | absent | abnormal | ZDB-PUB-170607-8 |
| OG0009762 | ENSDARG00000079015 | ENSDARG00000079015.4 | ENSDART00000111472 | ENSDART00000111472.3 | brca2 | BRCA2 DNA repair associated [Source:ZFIN;Acc:ZDB-GENE-060510-3] | pronephric podocyte | decreased amount | abnormal | ZDB-PUB-170607-8 |
| OG0009762 | ENSDARG00000079015 | ENSDARG00000079015.4 | ENSDART00000111472 | ENSDART00000111472.3 | brca2 | BRCA2 DNA repair associated [Source:ZFIN;Acc:ZDB-GENE-060510-3] | pronephric podocyte | absent | abnormal | ZDB-PUB-170607-8 |
| OG0009762 | ENSDARG00000079015 | ENSDARG00000079015.4 | ENSDART00000111472 | ENSDART00000111472.3 | brca2 | BRCA2 DNA repair associated [Source:ZFIN;Acc:ZDB-GENE-060510-3] | pronephric podocyte | absent | abnormal | ZDB-PUB-170607-8 |
| OG0009762 | ENSDARG00000079015 | ENSDARG00000079015.4 | ENSDART00000111472 | ENSDART00000111472.3 | brca2 | BRCA2 DNA repair associated [Source:ZFIN;Acc:ZDB-GENE-060510-3] | pronephric podocyte | decreased amount | abnormal | ZDB-PUB-170607-8 |
| OG0009762 | ENSDARG00000079015 | ENSDARG00000079015.4 | ENSDART00000111472 | ENSDART00000111472.3 | brca2 | BRCA2 DNA repair associated [Source:ZFIN;Acc:ZDB-GENE-060510-3] | pronephric podocyte | decreased amount | abnormal | ZDB-PUB-170607-8 |
| OG0009762 | ENSDARG00000079015 | ENSDARG00000079015.4 | ENSDART00000111472 | ENSDART00000111472.3 | brca2 | BRCA2 DNA repair associated [Source:ZFIN;Acc:ZDB-GENE-060510-3] | pronephric podocyte | decreased amount | abnormal | ZDB-PUB-170607-8 |
| OG0009762 | ENSDARG00000079015 | ENSDARG00000079015.4 | ENSDART00000111472 | ENSDART00000111472.3 | brca2 | BRCA2 DNA repair associated [Source:ZFIN;Acc:ZDB-GENE-060510-3] | pronephric podocyte | decreased amount | abnormal | ZDB-PUB-170607-8 |
| OG0009762 | ENSDARG00000079015 | ENSDARG00000079015.4 | ENSDART00000111472 | ENSDART00000111472.3 | brca2 | BRCA2 DNA repair associated [Source:ZFIN;Acc:ZDB-GENE-060510-3] | pronephric podocyte | absent | abnormal | ZDB-PUB-170607-8 |
| OG0009762 | ENSDARG00000079015 | ENSDARG00000079015.4 | ENSDART00000111472 | ENSDART00000111472.3 | brca2 | BRCA2 DNA repair associated [Source:ZFIN;Acc:ZDB-GENE-060510-3] | pronephric podocyte | absent | abnormal | ZDB-PUB-170607-8 |
| OG0009762 | ENSDARG00000079015 | ENSDARG00000079015.4 | ENSDART00000111472 | ENSDART00000111472.3 | brca2 | BRCA2 DNA repair associated [Source:ZFIN;Acc:ZDB-GENE-060510-3] | pronephros | lacks parts or has fewer parts of type | abnormal | ZDB-PUB-170607-8 |
| OG0009762 | ENSDARG00000079015 | ENSDARG00000079015.4 | ENSDART00000111472 | ENSDART00000111472.3 | brca2 | BRCA2 DNA repair associated [Source:ZFIN;Acc:ZDB-GENE-060510-3] | pronephros | lacks parts or has fewer parts of type | abnormal | ZDB-PUB-170607-8 |
| OG0009762 | ENSDARG00000079015 | ENSDARG00000079015.4 | ENSDART00000111472 | ENSDART00000111472.3 | brca2 | BRCA2 DNA repair associated [Source:ZFIN;Acc:ZDB-GENE-060510-3] | pronephros | lacks parts or has fewer parts of type | abnormal | ZDB-PUB-170607-8 |
| OG0009762 | ENSDARG00000079015 | ENSDARG00000079015.4 | ENSDART00000111472 | ENSDART00000111472.3 | brca2 | BRCA2 DNA repair associated [Source:ZFIN;Acc:ZDB-GENE-060510-3] | pronephros | lacks parts or has fewer parts of type | abnormal | ZDB-PUB-170607-8 |
| OG0009762 | ENSDARG00000079015 | ENSDARG00000079015.4 | ENSDART00000111472 | ENSDART00000111472.3 | brca2 | BRCA2 DNA repair associated [Source:ZFIN;Acc:ZDB-GENE-060510-3] | pronephros | lacks parts or has fewer parts of type | abnormal | ZDB-PUB-170607-8 |
| OG0009762 | ENSDARG00000079015 | ENSDARG00000079015.4 | ENSDART00000111472 | ENSDART00000111472.3 | brca2 | BRCA2 DNA repair associated [Source:ZFIN;Acc:ZDB-GENE-060510-3] | pronephros | lacks parts or has fewer parts of type | abnormal | ZDB-PUB-170607-8 |
| OG0009762 | ENSDARG00000079015 | ENSDARG00000079015.4 | ENSDART00000111472 | ENSDART00000111472.3 | brca2 | BRCA2 DNA repair associated [Source:ZFIN;Acc:ZDB-GENE-060510-3] | pronephros | decreased occurrence | abnormal | ZDB-PUB-170607-8 |
| OG0009762 | ENSDARG00000079015 | ENSDARG00000079015.4 | ENSDART00000111472 | ENSDART00000111472.3 | brca2 | BRCA2 DNA repair associated [Source:ZFIN;Acc:ZDB-GENE-060510-3] | pronephros | lacks all parts of type | abnormal | ZDB-PUB-170607-8 |
| OG0009762 | ENSDARG00000079015 | ENSDARG00000079015.4 | ENSDART00000111472 | ENSDART00000111472.3 | brca2 | BRCA2 DNA repair associated [Source:ZFIN;Acc:ZDB-GENE-060510-3] | pronephros | lacks all parts of type | abnormal | ZDB-PUB-170607-8 |
| OG0009762 | ENSDARG00000079015 | ENSDARG00000079015.4 | ENSDART00000111472 | ENSDART00000111472.3 | brca2 | BRCA2 DNA repair associated [Source:ZFIN;Acc:ZDB-GENE-060510-3] | pronephros | decreased occurrence | abnormal | ZDB-PUB-170607-8 |
| OG0009762 | ENSDARG00000079015 | ENSDARG00000079015.4 | ENSDART00000111472 | ENSDART00000111472.3 | brca2 | BRCA2 DNA repair associated [Source:ZFIN;Acc:ZDB-GENE-060510-3] | spermatocyte | apoptotic | abnormal | ZDB-PUB-101027-46 |
| OG0009762 | ENSDARG00000079015 | ENSDARG00000079015.4 | ENSDART00000111472 | ENSDART00000111472.3 | brca2 | BRCA2 DNA repair associated [Source:ZFIN;Acc:ZDB-GENE-060510-3] | spermatocyte | apoptotic | abnormal | ZDB-PUB-101027-46 |
| OG0009762 | ENSDARG00000079015 | ENSDARG00000079015.4 | ENSDART00000111472 | ENSDART00000111472.3 | brca2 | BRCA2 DNA repair associated [Source:ZFIN;Acc:ZDB-GENE-060510-3] | spermatogenesis | arrested | abnormal | ZDB-PUB-101027-46 |
| OG0009762 | ENSDARG00000079015 | ENSDARG00000079015.4 | ENSDART00000111472 | ENSDART00000111472.3 | brca2 | BRCA2 DNA repair associated [Source:ZFIN;Acc:ZDB-GENE-060510-3] | testis | neoplastic | abnormal | ZDB-PUB-101027-46 |
| OG0009762 | ENSDARG00000079015 | ENSDARG00000079015.4 | ENSDART00000111472 | ENSDART00000111472.3 | brca2 | BRCA2 DNA repair associated [Source:ZFIN;Acc:ZDB-GENE-060510-3] | testis | degeneration | abnormal | ZDB-PUB-101027-46 |
| OG0009762 | ENSDARG00000079015 | ENSDARG00000079015.4 | ENSDART00000111472 | ENSDART00000111472.3 | brca2 | BRCA2 DNA repair associated [Source:ZFIN;Acc:ZDB-GENE-060510-3] | testis | hyperplastic | abnormal | ZDB-PUB-101027-46 |
| OG0009762 | ENSDARG00000079015 | ENSDARG00000079015.4 | ENSDART00000111472 | ENSDART00000111472.3 | brca2 | BRCA2 DNA repair associated [Source:ZFIN;Acc:ZDB-GENE-060510-3] | testis | has fewer parts of type | abnormal | ZDB-PUB-101027-46 |
| OG0009762 | ENSDARG00000079015 | ENSDARG00000079015.4 | ENSDART00000111472 | ENSDART00000111472.3 | brca2 | BRCA2 DNA repair associated [Source:ZFIN;Acc:ZDB-GENE-060510-3] | testis | absent | abnormal | ZDB-PUB-181213-8 |
| OG0009762 | ENSDARG00000079015 | ENSDARG00000079015.4 | ENSDART00000111472 | ENSDART00000111472.3 | brca2 | BRCA2 DNA repair associated [Source:ZFIN;Acc:ZDB-GENE-060510-3] | whole organism | decreased occurrence | abnormal | ZDB-PUB-170607-8 |
| OG0009762 | ENSDARG00000079015 | ENSDARG00000079015.4 | ENSDART00000111472 | ENSDART00000111472.3 | brca2 | BRCA2 DNA repair associated [Source:ZFIN;Acc:ZDB-GENE-060510-3] | whole organism | increased distribution | abnormal | ZDB-PUB-170607-8 |
| OG0009762 | ENSDARG00000079015 | ENSDARG00000079015.4 | ENSDART00000111472 | ENSDART00000111472.3 | brca2 | BRCA2 DNA repair associated [Source:ZFIN;Acc:ZDB-GENE-060510-3] | whole organism | increased amount | abnormal | ZDB-PUB-170607-8 |
| OG0009762 | ENSDARG00000079015 | ENSDARG00000079015.4 | ENSDART00000111472 | ENSDART00000111472.3 | brca2 | BRCA2 DNA repair associated [Source:ZFIN;Acc:ZDB-GENE-060510-3] | whole organism | decreased male fertility | abnormal | ZDB-PUB-181213-8 |
| OG0000295 | ENSDARG00000012694 | ENSDARG00000012694.9 | ENSDART00000052688 | ENSDART00000052688.7 | c3a.1 | complement component c3a, duplicate 1 [Source:ZFIN;Acc:ZDB-GENE-990415-35] | embryo development | disrupted | abnormal | ZDB-PUB-140614-2 |
| OG0000295 | ENSDARG00000012694 | ENSDARG00000012694.9 | ENSDART00000052688 | ENSDART00000052688.7 | c3a.1 | complement component c3a, duplicate 1 [Source:ZFIN;Acc:ZDB-GENE-990415-35] | neutrophil migration | decreased rate | abnormal | ZDB-PUB-201002-161 |
| OG0000295 | ENSDARG00000012694 | ENSDARG00000012694.9 | ENSDART00000052688 | ENSDART00000052688.7 | c3a.1 | complement component c3a, duplicate 1 [Source:ZFIN;Acc:ZDB-GENE-990415-35] | whole organism | decreased amount | abnormal | ZDB-PUB-201002-161 |
| OG0000295 | ENSDARG00000012694 | ENSDARG00000012694.9 | ENSDART00000052688 | ENSDART00000052688.7 | c3a.1 | complement component c3a, duplicate 1 [Source:ZFIN;Acc:ZDB-GENE-990415-35] | whole organism | decreased amount | abnormal | ZDB-PUB-201002-161 |
| OG0000295 | ENSDARG00000012694 | ENSDARG00000012694.9 | ENSDART00000052688 | ENSDART00000052688.7 | c3a.1 | complement component c3a, duplicate 1 [Source:ZFIN;Acc:ZDB-GENE-990415-35] | whole organism | increased amount | abnormal | ZDB-PUB-201002-161 |
| OG0000295 | ENSDARG00000012694 | ENSDARG00000012694.9 | ENSDART00000052688 | ENSDART00000052688.7 | c3a.1 | complement component c3a, duplicate 1 [Source:ZFIN;Acc:ZDB-GENE-990415-35] | whole organism | malformed | abnormal | ZDB-PUB-140614-2 |
| OG0004072 | ENSDARG00000077881 | ENSDARG00000077881.5 | ENSDART00000111028 | ENSDART00000111028.3 | chl1a | cell adhesion molecule L1-like a [Source:ZFIN;Acc:ZDB-GENE-090313-201] | pericardium | edematous | abnormal | ZDB-PUB-200910-9 |
| OG0004072 | ENSDARG00000077881 | ENSDARG00000077881.5 | ENSDART00000111028 | ENSDART00000111028.3 | chl1a | cell adhesion molecule L1-like a [Source:ZFIN;Acc:ZDB-GENE-090313-201] | Reissner’s fiber | absent | abnormal | ZDB-PUB-200910-9 |
| OG0004072 | ENSDARG00000077881 | ENSDARG00000077881.5 | ENSDART00000111028 | ENSDART00000111028.3 | chl1a | cell adhesion molecule L1-like a [Source:ZFIN;Acc:ZDB-GENE-090313-201] | Reissner’s fiber | partially broken | abnormal | ZDB-PUB-200910-9 |
| OG0004072 | ENSDARG00000077881 | ENSDARG00000077881.5 | ENSDART00000111028 | ENSDART00000111028.3 | chl1a | cell adhesion molecule L1-like a [Source:ZFIN;Acc:ZDB-GENE-090313-201] | Reissner’s fiber | partially broken | abnormal | ZDB-PUB-200910-9 |
| OG0004072 | ENSDARG00000077881 | ENSDARG00000077881.5 | ENSDART00000111028 | ENSDART00000111028.3 | chl1a | cell adhesion molecule L1-like a [Source:ZFIN;Acc:ZDB-GENE-090313-201] | Reissner’s fiber | absent | abnormal | ZDB-PUB-200910-9 |
| OG0004072 | ENSDARG00000077881 | ENSDARG00000077881.5 | ENSDART00000111028 | ENSDART00000111028.3 | chl1a | cell adhesion molecule L1-like a [Source:ZFIN;Acc:ZDB-GENE-090313-201] | subcommissural organ | morphology | abnormal | ZDB-PUB-200910-9 |
| OG0004072 | ENSDARG00000077881 | ENSDARG00000077881.5 | ENSDART00000111028 | ENSDART00000111028.3 | chl1a | cell adhesion molecule L1-like a [Source:ZFIN;Acc:ZDB-GENE-090313-201] | trunk | curled | abnormal | ZDB-PUB-200910-9 |
| OG0004072 | ENSDARG00000077881 | ENSDARG00000077881.5 | ENSDART00000111028 | ENSDART00000111028.3 | chl1a | cell adhesion molecule L1-like a [Source:ZFIN;Acc:ZDB-GENE-090313-201] | trunk | curled | abnormal | ZDB-PUB-200910-9 |
| OG0004072 | ENSDARG00000077881 | ENSDARG00000077881.5 | ENSDART00000111028 | ENSDART00000111028.3 | chl1a | cell adhesion molecule L1-like a [Source:ZFIN;Acc:ZDB-GENE-090313-201] | trunk | curled | abnormal | ZDB-PUB-200910-9 |
| OG0004072 | ENSDARG00000077881 | ENSDARG00000077881.5 | ENSDART00000111028 | ENSDART00000111028.3 | chl1a | cell adhesion molecule L1-like a [Source:ZFIN;Acc:ZDB-GENE-090313-201] | trunk | curled | abnormal | ZDB-PUB-200910-9 |
| OG0004072 | ENSDARG00000077881 | ENSDARG00000077881.5 | ENSDART00000111028 | ENSDART00000111028.3 | chl1a | cell adhesion molecule L1-like a [Source:ZFIN;Acc:ZDB-GENE-090313-201] | ventricular system | swollen | abnormal | ZDB-PUB-200910-9 |
| OG0004072 | ENSDARG00000077881 | ENSDARG00000077881.5 | ENSDART00000111028 | ENSDART00000111028.3 | chl1a | cell adhesion molecule L1-like a [Source:ZFIN;Acc:ZDB-GENE-090313-201] | ventricular system | accumulation | abnormal | ZDB-PUB-200910-9 |
| OG0004072 | ENSDARG00000077881 | ENSDARG00000077881.5 | ENSDART00000111028 | ENSDART00000111028.3 | chl1a | cell adhesion molecule L1-like a [Source:ZFIN;Acc:ZDB-GENE-090313-201] | ventricular system | swollen | abnormal | ZDB-PUB-200910-9 |
| OG0004072 | ENSDARG00000077881 | ENSDARG00000077881.5 | ENSDART00000111028 | ENSDART00000111028.3 | chl1a | cell adhesion molecule L1-like a [Source:ZFIN;Acc:ZDB-GENE-090313-201] | ventricular system | swollen | abnormal | ZDB-PUB-200910-9 |
| OG0004072 | ENSDARG00000077881 | ENSDARG00000077881.5 | ENSDART00000111028 | ENSDART00000111028.3 | chl1a | cell adhesion molecule L1-like a [Source:ZFIN;Acc:ZDB-GENE-090313-201] | ventricular system | accumulation | abnormal | ZDB-PUB-200910-9 |
| OG0004072 | ENSDARG00000077881 | ENSDARG00000077881.5 | ENSDART00000111028 | ENSDART00000111028.3 | chl1a | cell adhesion molecule L1-like a [Source:ZFIN;Acc:ZDB-GENE-090313-201] | ventricular system | accumulation | abnormal | ZDB-PUB-200910-9 |
| OG0004072 | ENSDARG00000077881 | ENSDARG00000077881.5 | ENSDART00000111028 | ENSDART00000111028.3 | chl1a | cell adhesion molecule L1-like a [Source:ZFIN;Acc:ZDB-GENE-090313-201] | ventricular system | accumulation | abnormal | ZDB-PUB-200910-9 |
| OG0004072 | ENSDARG00000077881 | ENSDARG00000077881.5 | ENSDART00000111028 | ENSDART00000111028.3 | chl1a | cell adhesion molecule L1-like a [Source:ZFIN;Acc:ZDB-GENE-090313-201] | ventricular system | swollen | abnormal | ZDB-PUB-200910-9 |
| OG0004072 | ENSDARG00000077881 | ENSDARG00000077881.5 | ENSDART00000111028 | ENSDART00000111028.3 | chl1a | cell adhesion molecule L1-like a [Source:ZFIN;Acc:ZDB-GENE-090313-201] | ventricular system | accumulation | abnormal | ZDB-PUB-200910-9 |
| OG0004072 | ENSDARG00000077881 | ENSDARG00000077881.5 | ENSDART00000111028 | ENSDART00000111028.3 | chl1a | cell adhesion molecule L1-like a [Source:ZFIN;Acc:ZDB-GENE-090313-201] | ventricular system | swollen | abnormal | ZDB-PUB-200910-9 |
| OG0000135 | ENSDARG00000020850 | ENSDARG00000020850.8 | ENSDART00000023156 | ENSDART00000023156.7 | eef1a1l1 | eukaryotic translation elongation factor 1 alpha 1, like 2 [Source:ZFIN;Acc:ZDB-GENE-050706-188] | eye | decreased size | abnormal | ZDB-PUB-040708-1 |
| OG0000135 | ENSDARG00000020850 | ENSDARG00000020850.8 | ENSDART00000023156 | ENSDART00000023156.7 | eef1a1l1 | eukaryotic translation elongation factor 1 alpha 1, like 2 [Source:ZFIN;Acc:ZDB-GENE-050706-188] | eye | decreased size | abnormal | ZDB-PUB-060503-2 |
| OG0000135 | ENSDARG00000020850 | ENSDARG00000020850.8 | ENSDART00000023156 | ENSDART00000023156.7 | eef1a1l1 | eukaryotic translation elongation factor 1 alpha 1, like 2 [Source:ZFIN;Acc:ZDB-GENE-050706-188] | head | decreased size | abnormal | ZDB-PUB-040708-1 |
| OG0000135 | ENSDARG00000020850 | ENSDARG00000020850.8 | ENSDART00000023156 | ENSDART00000023156.7 | eef1a1l1 | eukaryotic translation elongation factor 1 alpha 1, like 2 [Source:ZFIN;Acc:ZDB-GENE-050706-188] | sensory system | quality | abnormal | ZDB-PUB-060503-2 |
| OG0000135 | ENSDARG00000020850 | ENSDARG00000020850.8 | ENSDART00000023156 | ENSDART00000023156.7 | eef1a1l1 | eukaryotic translation elongation factor 1 alpha 1, like 2 [Source:ZFIN;Acc:ZDB-GENE-050706-188] | whole organism | necrotic | abnormal | ZDB-PUB-040708-1 |
| OG0000135 | ENSDARG00000020850 | ENSDARG00000020850.8 | ENSDART00000023156 | ENSDART00000023156.7 | eef1a1l1 | eukaryotic translation elongation factor 1 alpha 1, like 2 [Source:ZFIN;Acc:ZDB-GENE-050706-188] | yolk | circular | abnormal | ZDB-PUB-040708-1 |
| OG0000135 | ENSDARG00000006838 | ENSDARG00000006838.7 | ENSDART00000010119 | ENSDART00000010119.7 | eef1a2 | eukaryotic translation elongation factor 1 alpha 2 [Source:ZFIN;Acc:ZDB-GENE-040718-64] | atrium | increased size | abnormal | ZDB-PUB-170916-10 |
| OG0000135 | ENSDARG00000006838 | ENSDARG00000006838.7 | ENSDART00000010119 | ENSDART00000010119.7 | eef1a2 | eukaryotic translation elongation factor 1 alpha 2 [Source:ZFIN;Acc:ZDB-GENE-040718-64] | atrium | increased size | abnormal | ZDB-PUB-170916-10 |
| OG0000135 | ENSDARG00000111569 | ENSDARG00000111569.1 | ENSDART00000180145 | ENSDART00000180145.1 | eef1a2 | eukaryotic translation elongation factor 1 alpha 2 [Source:ZFIN;Acc:ZDB-GENE-040718-64] | atrium | increased size | abnormal | ZDB-PUB-170916-10 |
| OG0000135 | ENSDARG00000111569 | ENSDARG00000111569.1 | ENSDART00000180145 | ENSDART00000180145.1 | eef1a2 | eukaryotic translation elongation factor 1 alpha 2 [Source:ZFIN;Acc:ZDB-GENE-040718-64] | atrium | increased size | abnormal | ZDB-PUB-170916-10 |
| OG0000135 | ENSDARG00000006838 | ENSDARG00000006838.7 | ENSDART00000010119 | ENSDART00000010119.7 | eef1a2 | eukaryotic translation elongation factor 1 alpha 2 [Source:ZFIN;Acc:ZDB-GENE-040718-64] | brain | decreased amount | abnormal | ZDB-PUB-200118-22 |
| OG0000135 | ENSDARG00000006838 | ENSDARG00000006838.7 | ENSDART00000010119 | ENSDART00000010119.7 | eef1a2 | eukaryotic translation elongation factor 1 alpha 2 [Source:ZFIN;Acc:ZDB-GENE-040718-64] | brain | decreased amount | abnormal | ZDB-PUB-200118-22 |
| OG0000135 | ENSDARG00000006838 | ENSDARG00000006838.7 | ENSDART00000010119 | ENSDART00000010119.7 | eef1a2 | eukaryotic translation elongation factor 1 alpha 2 [Source:ZFIN;Acc:ZDB-GENE-040718-64] | brain | decreased amount | abnormal | ZDB-PUB-200118-22 |
| OG0000135 | ENSDARG00000111569 | ENSDARG00000111569.1 | ENSDART00000180145 | ENSDART00000180145.1 | eef1a2 | eukaryotic translation elongation factor 1 alpha 2 [Source:ZFIN;Acc:ZDB-GENE-040718-64] | brain | decreased amount | abnormal | ZDB-PUB-200118-22 |
| OG0000135 | ENSDARG00000111569 | ENSDARG00000111569.1 | ENSDART00000180145 | ENSDART00000180145.1 | eef1a2 | eukaryotic translation elongation factor 1 alpha 2 [Source:ZFIN;Acc:ZDB-GENE-040718-64] | brain | decreased amount | abnormal | ZDB-PUB-200118-22 |
| OG0000135 | ENSDARG00000111569 | ENSDARG00000111569.1 | ENSDART00000180145 | ENSDART00000180145.1 | eef1a2 | eukaryotic translation elongation factor 1 alpha 2 [Source:ZFIN;Acc:ZDB-GENE-040718-64] | brain | decreased amount | abnormal | ZDB-PUB-200118-22 |
| OG0000135 | ENSDARG00000006838 | ENSDARG00000006838.7 | ENSDART00000010119 | ENSDART00000010119.7 | eef1a2 | eukaryotic translation elongation factor 1 alpha 2 [Source:ZFIN;Acc:ZDB-GENE-040718-64] | head | decreased size | abnormal | ZDB-PUB-170916-10 |
| OG0000135 | ENSDARG00000006838 | ENSDARG00000006838.7 | ENSDART00000010119 | ENSDART00000010119.7 | eef1a2 | eukaryotic translation elongation factor 1 alpha 2 [Source:ZFIN;Acc:ZDB-GENE-040718-64] | head | decreased size | abnormal | ZDB-PUB-170916-10 |
| OG0000135 | ENSDARG00000111569 | ENSDARG00000111569.1 | ENSDART00000180145 | ENSDART00000180145.1 | eef1a2 | eukaryotic translation elongation factor 1 alpha 2 [Source:ZFIN;Acc:ZDB-GENE-040718-64] | head | decreased size | abnormal | ZDB-PUB-170916-10 |
| OG0000135 | ENSDARG00000111569 | ENSDARG00000111569.1 | ENSDART00000180145 | ENSDART00000180145.1 | eef1a2 | eukaryotic translation elongation factor 1 alpha 2 [Source:ZFIN;Acc:ZDB-GENE-040718-64] | head | decreased size | abnormal | ZDB-PUB-170916-10 |
| OG0000135 | ENSDARG00000006838 | ENSDARG00000006838.7 | ENSDART00000010119 | ENSDART00000010119.7 | eef1a2 | eukaryotic translation elongation factor 1 alpha 2 [Source:ZFIN;Acc:ZDB-GENE-040718-64] | heart contraction | decreased rate | abnormal | ZDB-PUB-170916-10 |
| OG0000135 | ENSDARG00000006838 | ENSDARG00000006838.7 | ENSDART00000010119 | ENSDART00000010119.7 | eef1a2 | eukaryotic translation elongation factor 1 alpha 2 [Source:ZFIN;Acc:ZDB-GENE-040718-64] | heart contraction | irregular rhythm | abnormal | ZDB-PUB-170916-10 |
| OG0000135 | ENSDARG00000006838 | ENSDARG00000006838.7 | ENSDART00000010119 | ENSDART00000010119.7 | eef1a2 | eukaryotic translation elongation factor 1 alpha 2 [Source:ZFIN;Acc:ZDB-GENE-040718-64] | heart contraction | irregular rhythm | abnormal | ZDB-PUB-170916-10 |
| OG0000135 | ENSDARG00000006838 | ENSDARG00000006838.7 | ENSDART00000010119 | ENSDART00000010119.7 | eef1a2 | eukaryotic translation elongation factor 1 alpha 2 [Source:ZFIN;Acc:ZDB-GENE-040718-64] | heart contraction | decreased rate | abnormal | ZDB-PUB-170916-10 |
| OG0000135 | ENSDARG00000111569 | ENSDARG00000111569.1 | ENSDART00000180145 | ENSDART00000180145.1 | eef1a2 | eukaryotic translation elongation factor 1 alpha 2 [Source:ZFIN;Acc:ZDB-GENE-040718-64] | heart contraction | decreased rate | abnormal | ZDB-PUB-170916-10 |
| OG0000135 | ENSDARG00000111569 | ENSDARG00000111569.1 | ENSDART00000180145 | ENSDART00000180145.1 | eef1a2 | eukaryotic translation elongation factor 1 alpha 2 [Source:ZFIN;Acc:ZDB-GENE-040718-64] | heart contraction | irregular rhythm | abnormal | ZDB-PUB-170916-10 |
| OG0000135 | ENSDARG00000111569 | ENSDARG00000111569.1 | ENSDART00000180145 | ENSDART00000180145.1 | eef1a2 | eukaryotic translation elongation factor 1 alpha 2 [Source:ZFIN;Acc:ZDB-GENE-040718-64] | heart contraction | irregular rhythm | abnormal | ZDB-PUB-170916-10 |
| OG0000135 | ENSDARG00000111569 | ENSDARG00000111569.1 | ENSDART00000180145 | ENSDART00000180145.1 | eef1a2 | eukaryotic translation elongation factor 1 alpha 2 [Source:ZFIN;Acc:ZDB-GENE-040718-64] | heart contraction | decreased rate | abnormal | ZDB-PUB-170916-10 |
| OG0000135 | ENSDARG00000006838 | ENSDARG00000006838.7 | ENSDART00000010119 | ENSDART00000010119.7 | eef1a2 | eukaryotic translation elongation factor 1 alpha 2 [Source:ZFIN;Acc:ZDB-GENE-040718-64] | heart development | disrupted | abnormal | ZDB-PUB-170916-10 |
| OG0000135 | ENSDARG00000006838 | ENSDARG00000006838.7 | ENSDART00000010119 | ENSDART00000010119.7 | eef1a2 | eukaryotic translation elongation factor 1 alpha 2 [Source:ZFIN;Acc:ZDB-GENE-040718-64] | heart development | disrupted | abnormal | ZDB-PUB-170916-10 |
| OG0000135 | ENSDARG00000111569 | ENSDARG00000111569.1 | ENSDART00000180145 | ENSDART00000180145.1 | eef1a2 | eukaryotic translation elongation factor 1 alpha 2 [Source:ZFIN;Acc:ZDB-GENE-040718-64] | heart development | disrupted | abnormal | ZDB-PUB-170916-10 |
| OG0000135 | ENSDARG00000111569 | ENSDARG00000111569.1 | ENSDART00000180145 | ENSDART00000180145.1 | eef1a2 | eukaryotic translation elongation factor 1 alpha 2 [Source:ZFIN;Acc:ZDB-GENE-040718-64] | heart development | disrupted | abnormal | ZDB-PUB-170916-10 |
| OG0000135 | ENSDARG00000006838 | ENSDARG00000006838.7 | ENSDART00000010119 | ENSDART00000010119.7 | eef1a2 | eukaryotic translation elongation factor 1 alpha 2 [Source:ZFIN;Acc:ZDB-GENE-040718-64] | muscle | decreased amount | abnormal | ZDB-PUB-200118-22 |
| OG0000135 | ENSDARG00000111569 | ENSDARG00000111569.1 | ENSDART00000180145 | ENSDART00000180145.1 | eef1a2 | eukaryotic translation elongation factor 1 alpha 2 [Source:ZFIN;Acc:ZDB-GENE-040718-64] | muscle | decreased amount | abnormal | ZDB-PUB-200118-22 |
| OG0000135 | ENSDARG00000006838 | ENSDARG00000006838.7 | ENSDART00000010119 | ENSDART00000010119.7 | eef1a2 | eukaryotic translation elongation factor 1 alpha 2 [Source:ZFIN;Acc:ZDB-GENE-040718-64] | pericardium | edematous | abnormal | ZDB-PUB-170916-10 |
| OG0000135 | ENSDARG00000006838 | ENSDARG00000006838.7 | ENSDART00000010119 | ENSDART00000010119.7 | eef1a2 | eukaryotic translation elongation factor 1 alpha 2 [Source:ZFIN;Acc:ZDB-GENE-040718-64] | pericardium | edematous | abnormal | ZDB-PUB-170916-10 |
| OG0000135 | ENSDARG00000111569 | ENSDARG00000111569.1 | ENSDART00000180145 | ENSDART00000180145.1 | eef1a2 | eukaryotic translation elongation factor 1 alpha 2 [Source:ZFIN;Acc:ZDB-GENE-040718-64] | pericardium | edematous | abnormal | ZDB-PUB-170916-10 |
| OG0000135 | ENSDARG00000111569 | ENSDARG00000111569.1 | ENSDART00000180145 | ENSDART00000180145.1 | eef1a2 | eukaryotic translation elongation factor 1 alpha 2 [Source:ZFIN;Acc:ZDB-GENE-040718-64] | pericardium | edematous | abnormal | ZDB-PUB-170916-10 |
| OG0000135 | ENSDARG00000006838 | ENSDARG00000006838.7 | ENSDART00000010119 | ENSDART00000010119.7 | eef1a2 | eukaryotic translation elongation factor 1 alpha 2 [Source:ZFIN;Acc:ZDB-GENE-040718-64] | whole organism | decreased amount | abnormal | ZDB-PUB-170916-10 |
| OG0000135 | ENSDARG00000006838 | ENSDARG00000006838.7 | ENSDART00000010119 | ENSDART00000010119.7 | eef1a2 | eukaryotic translation elongation factor 1 alpha 2 [Source:ZFIN;Acc:ZDB-GENE-040718-64] | whole organism | decreased amount | abnormal | ZDB-PUB-170916-10 |
| OG0000135 | ENSDARG00000006838 | ENSDARG00000006838.7 | ENSDART00000010119 | ENSDART00000010119.7 | eef1a2 | eukaryotic translation elongation factor 1 alpha 2 [Source:ZFIN;Acc:ZDB-GENE-040718-64] | whole organism | increased curvature | abnormal | ZDB-PUB-170916-10 |
| OG0000135 | ENSDARG00000006838 | ENSDARG00000006838.7 | ENSDART00000010119 | ENSDART00000010119.7 | eef1a2 | eukaryotic translation elongation factor 1 alpha 2 [Source:ZFIN;Acc:ZDB-GENE-040718-64] | whole organism | increased curvature | abnormal | ZDB-PUB-170916-10 |
| OG0000135 | ENSDARG00000111569 | ENSDARG00000111569.1 | ENSDART00000180145 | ENSDART00000180145.1 | eef1a2 | eukaryotic translation elongation factor 1 alpha 2 [Source:ZFIN;Acc:ZDB-GENE-040718-64] | whole organism | decreased amount | abnormal | ZDB-PUB-170916-10 |
| OG0000135 | ENSDARG00000111569 | ENSDARG00000111569.1 | ENSDART00000180145 | ENSDART00000180145.1 | eef1a2 | eukaryotic translation elongation factor 1 alpha 2 [Source:ZFIN;Acc:ZDB-GENE-040718-64] | whole organism | decreased amount | abnormal | ZDB-PUB-170916-10 |
| OG0000135 | ENSDARG00000111569 | ENSDARG00000111569.1 | ENSDART00000180145 | ENSDART00000180145.1 | eef1a2 | eukaryotic translation elongation factor 1 alpha 2 [Source:ZFIN;Acc:ZDB-GENE-040718-64] | whole organism | increased curvature | abnormal | ZDB-PUB-170916-10 |
| OG0000135 | ENSDARG00000111569 | ENSDARG00000111569.1 | ENSDART00000180145 | ENSDART00000180145.1 | eef1a2 | eukaryotic translation elongation factor 1 alpha 2 [Source:ZFIN;Acc:ZDB-GENE-040718-64] | whole organism | increased curvature | abnormal | ZDB-PUB-170916-10 |
| OG0007954 | ENSDARG00000075612 | ENSDARG00000075612.6 | ENSDART00000134809 | ENSDART00000134809.4 | ercc6 | excision repair cross-complementation group 6 [Source:ZFIN;Acc:ZDB-GENE-070228-1] | head | decreased size | abnormal | ZDB-PUB-150624-6 |
| OG0007954 | ENSDARG00000075612 | ENSDARG00000075612.6 | ENSDART00000134809 | ENSDART00000134809.4 | ercc6 | excision repair cross-complementation group 6 [Source:ZFIN;Acc:ZDB-GENE-070228-1] | head | hydrocephalic | abnormal | ZDB-PUB-150624-6 |
| OG0007954 | ENSDARG00000075612 | ENSDARG00000075612.6 | ENSDART00000134809 | ENSDART00000134809.4 | ercc6 | excision repair cross-complementation group 6 [Source:ZFIN;Acc:ZDB-GENE-070228-1] | post-vent region | curved | abnormal | ZDB-PUB-150624-6 |
| OG0007954 | ENSDARG00000075612 | ENSDARG00000075612.6 | ENSDART00000134809 | ENSDART00000134809.4 | ercc6 | excision repair cross-complementation group 6 [Source:ZFIN;Acc:ZDB-GENE-070228-1] | trunk | decreased size | abnormal | ZDB-PUB-150624-6 |
| OG0007954 | ENSDARG00000075612 | ENSDARG00000075612.6 | ENSDART00000134809 | ENSDART00000134809.4 | ercc6 | excision repair cross-complementation group 6 [Source:ZFIN;Acc:ZDB-GENE-070228-1] | trunk | malformed | abnormal | ZDB-PUB-150624-6 |
| OG0008355 | ENSDARG00000075354 | ENSDARG00000075354.5 | ENSDART00000156645 | ENSDART00000156645.2 | espl1 | extra spindle pole bodies like 1, separase [Source:ZFIN;Acc:ZDB-GENE-030131-5188] | cell population proliferation | process quality | abnormal | ZDB-PUB-050913-4 |
| OG0008355 | ENSDARG00000075354 | ENSDARG00000075354.5 | ENSDART00000156645 | ENSDART00000156645.2 | espl1 | extra spindle pole bodies like 1, separase [Source:ZFIN;Acc:ZDB-GENE-030131-5188] | head | decreased size | abnormal | ZDB-PUB-070122-27 |
| OG0008355 | ENSDARG00000075354 | ENSDARG00000075354.5 | ENSDART00000156645 | ENSDART00000156645.2 | espl1 | extra spindle pole bodies like 1, separase [Source:ZFIN;Acc:ZDB-GENE-030131-5188] | head | apoptotic | abnormal | ZDB-PUB-070122-27 |
| OG0008355 | ENSDARG00000075354 | ENSDARG00000075354.5 | ENSDART00000156645 | ENSDART00000156645.2 | espl1 | extra spindle pole bodies like 1, separase [Source:ZFIN;Acc:ZDB-GENE-030131-5188] | mitotic cell cycle, embryonic | increased duration | abnormal | ZDB-PUB-070122-27 |
| OG0008355 | ENSDARG00000075354 | ENSDARG00000075354.5 | ENSDART00000156645 | ENSDART00000156645.2 | espl1 | extra spindle pole bodies like 1, separase [Source:ZFIN;Acc:ZDB-GENE-030131-5188] | mitotic spindle organization | process quality | abnormal | ZDB-PUB-070122-27 |
| OG0008355 | ENSDARG00000075354 | ENSDARG00000075354.5 | ENSDART00000156645 | ENSDART00000156645.2 | espl1 | extra spindle pole bodies like 1, separase [Source:ZFIN;Acc:ZDB-GENE-030131-5188] | nervous system | quality | abnormal | ZDB-PUB-060503-2 |
| OG0008355 | ENSDARG00000075354 | ENSDARG00000075354.5 | ENSDART00000156645 | ENSDART00000156645.2 | espl1 | extra spindle pole bodies like 1, separase [Source:ZFIN;Acc:ZDB-GENE-030131-5188] | post-vent region | apoptotic | abnormal | ZDB-PUB-070122-27 |
| OG0008355 | ENSDARG00000075354 | ENSDARG00000075354.5 | ENSDART00000156645 | ENSDART00000156645.2 | espl1 | extra spindle pole bodies like 1, separase [Source:ZFIN;Acc:ZDB-GENE-030131-5188] | whole organism | ploidy | abnormal | ZDB-PUB-070122-27 |
| OG0008355 | ENSDARG00000075354 | ENSDARG00000075354.5 | ENSDART00000156645 | ENSDART00000156645.2 | espl1 | extra spindle pole bodies like 1, separase [Source:ZFIN;Acc:ZDB-GENE-030131-5188] | whole organism | ploidy | abnormal | ZDB-PUB-070122-27 |
| OG0008355 | ENSDARG00000075354 | ENSDARG00000075354.5 | ENSDART00000156645 | ENSDART00000156645.2 | espl1 | extra spindle pole bodies like 1, separase [Source:ZFIN;Acc:ZDB-GENE-030131-5188] | whole organism | lethal (sensu genetics) | abnormal | ZDB-PUB-050913-4 |
| OG0008355 | ENSDARG00000075354 | ENSDARG00000075354.5 | ENSDART00000156645 | ENSDART00000156645.2 | espl1 | extra spindle pole bodies like 1, separase [Source:ZFIN;Acc:ZDB-GENE-030131-5188] | whole organism | ploidy | abnormal | ZDB-PUB-070122-27 |
| OG0000348 | ENSDARG00000042984 | ENSDARG00000042984.8 | ENSDART00000156958 | ENSDART00000156958.2 | fpr1 | formyl peptide receptor 1 [Source:ZFIN;Acc:ZDB-GENE-121227-2] | neutrophil activation involved in immune response | disrupted | abnormal | ZDB-PUB-120928-15 |
| OG0007347 | ENSDARG00000031886 | ENSDARG00000031886.9 | ENSDART00000129889 | ENSDART00000129889.5 | ift140 | intraflagellar transport 140 homolog (Chlamydomonas) [Source:ZFIN;Acc:ZDB-GENE-040724-165] | gastrulation | process quality | abnormal | ZDB-PUB-170721-10 |
| OG0007347 | ENSDARG00000031886 | ENSDARG00000031886.9 | ENSDART00000129889 | ENSDART00000129889.5 | ift140 | intraflagellar transport 140 homolog (Chlamydomonas) [Source:ZFIN;Acc:ZDB-GENE-040724-165] | notochord | kinked | abnormal | ZDB-PUB-170721-10 |
| OG0007347 | ENSDARG00000031886 | ENSDARG00000031886.9 | ENSDART00000129889 | ENSDART00000129889.5 | ift140 | intraflagellar transport 140 homolog (Chlamydomonas) [Source:ZFIN;Acc:ZDB-GENE-040724-165] | notochord | increased width | abnormal | ZDB-PUB-170721-10 |
| OG0007347 | ENSDARG00000031886 | ENSDARG00000031886.9 | ENSDART00000129889 | ENSDART00000129889.5 | ift140 | intraflagellar transport 140 homolog (Chlamydomonas) [Source:ZFIN;Acc:ZDB-GENE-040724-165] | somite | increased width | abnormal | ZDB-PUB-170721-10 |
| OG0007347 | ENSDARG00000031886 | ENSDARG00000031886.9 | ENSDART00000129889 | ENSDART00000129889.5 | ift140 | intraflagellar transport 140 homolog (Chlamydomonas) [Source:ZFIN;Acc:ZDB-GENE-040724-165] | somite | decreased thickness | abnormal | ZDB-PUB-170721-10 |
| OG0007347 | ENSDARG00000031886 | ENSDARG00000031886.9 | ENSDART00000129889 | ENSDART00000129889.5 | ift140 | intraflagellar transport 140 homolog (Chlamydomonas) [Source:ZFIN;Acc:ZDB-GENE-040724-165] | whole organism | decreased length | abnormal | ZDB-PUB-170721-10 |
| OG0007347 | ENSDARG00000031886 | ENSDARG00000031886.9 | ENSDART00000129889 | ENSDART00000129889.5 | ift140 | intraflagellar transport 140 homolog (Chlamydomonas) [Source:ZFIN;Acc:ZDB-GENE-040724-165] | whole organism | decreased size | abnormal | ZDB-PUB-170721-10 |
| OG0011822 | ENSDARG00000009825 | ENSDARG00000009825.7 | ENSDART00000024068 | ENSDART00000024068.7 | mmp23bb | matrix metallopeptidase 23bb [Source:ZFIN;Acc:ZDB-GENE-050417-448] | cell division | decreased occurrence | abnormal | ZDB-PUB-101115-15 |
| OG0011822 | ENSDARG00000009825 | ENSDARG00000009825.7 | ENSDART00000024068 | ENSDART00000024068.7 | mmp23bb | matrix metallopeptidase 23bb [Source:ZFIN;Acc:ZDB-GENE-050417-448] | cell division | decreased occurrence | abnormal | ZDB-PUB-101115-15 |
| OG0011822 | ENSDARG00000009825 | ENSDARG00000009825.7 | ENSDART00000024068 | ENSDART00000024068.7 | mmp23bb | matrix metallopeptidase 23bb [Source:ZFIN;Acc:ZDB-GENE-050417-448] | hepatocyte proliferation | disrupted | abnormal | ZDB-PUB-101115-15 |
| OG0011822 | ENSDARG00000009825 | ENSDARG00000009825.7 | ENSDART00000024068 | ENSDART00000024068.7 | mmp23bb | matrix metallopeptidase 23bb [Source:ZFIN;Acc:ZDB-GENE-050417-448] | hepatocyte proliferation | disrupted | abnormal | ZDB-PUB-101115-15 |
| OG0011822 | ENSDARG00000009825 | ENSDARG00000009825.7 | ENSDART00000024068 | ENSDART00000024068.7 | mmp23bb | matrix metallopeptidase 23bb [Source:ZFIN;Acc:ZDB-GENE-050417-448] | liver | decreased size | abnormal | ZDB-PUB-101115-15 |
| OG0011822 | ENSDARG00000009825 | ENSDARG00000009825.7 | ENSDART00000024068 | ENSDART00000024068.7 | mmp23bb | matrix metallopeptidase 23bb [Source:ZFIN;Acc:ZDB-GENE-050417-448] | liver | decreased size | abnormal | ZDB-PUB-101115-15 |
| OG0011822 | ENSDARG00000009825 | ENSDARG00000009825.7 | ENSDART00000024068 | ENSDART00000024068.7 | mmp23bb | matrix metallopeptidase 23bb [Source:ZFIN;Acc:ZDB-GENE-050417-448] | liver | decreased size | abnormal | ZDB-PUB-101115-15 |
| OG0011822 | ENSDARG00000009825 | ENSDARG00000009825.7 | ENSDART00000024068 | ENSDART00000024068.7 | mmp23bb | matrix metallopeptidase 23bb [Source:ZFIN;Acc:ZDB-GENE-050417-448] | liver | decreased size | abnormal | ZDB-PUB-101115-15 |
| OG0011822 | ENSDARG00000009825 | ENSDARG00000009825.7 | ENSDART00000024068 | ENSDART00000024068.7 | mmp23bb | matrix metallopeptidase 23bb [Source:ZFIN;Acc:ZDB-GENE-050417-448] | liver | decreased size | abnormal | ZDB-PUB-101115-15 |
| OG0011822 | ENSDARG00000009825 | ENSDARG00000009825.7 | ENSDART00000024068 | ENSDART00000024068.7 | mmp23bb | matrix metallopeptidase 23bb [Source:ZFIN;Acc:ZDB-GENE-050417-448] | liver | decreased size | abnormal | ZDB-PUB-101115-15 |
| OG0011822 | ENSDARG00000009825 | ENSDARG00000009825.7 | ENSDART00000024068 | ENSDART00000024068.7 | mmp23bb | matrix metallopeptidase 23bb [Source:ZFIN;Acc:ZDB-GENE-050417-448] | liver | decreased size | abnormal | ZDB-PUB-101115-15 |
| OG0000809 | ENSDARG00000038822 | ENSDARG00000038822.8 | ENSDART00000140523 | ENSDART00000140523.3 | mrc1b | mannose receptor, C type 1b [Source:ZFIN;Acc:ZDB-GENE-070705-13] | microglial cell | decreased amount | abnormal | ZDB-PUB-190216-3 |
| OG0000943 | ENSDARG00000021265 | ENSDARG00000021265.9 | ENSDART00000143184 | ENSDART00000143184.2 | mybpc2b | myosin binding protein C, fast type b [Source:ZFIN;Acc:ZDB-GENE-050320-80] | pericardium | edematous | abnormal | ZDB-PUB-160330-7 |
| OG0000943 | ENSDARG00000021265 | ENSDARG00000021265.9 | ENSDART00000143184 | ENSDART00000143184.2 | mybpc2b | myosin binding protein C, fast type b [Source:ZFIN;Acc:ZDB-GENE-050320-80] | skeletal muscle | increased process quality | abnormal | ZDB-PUB-160330-7 |
| OG0000943 | ENSDARG00000021265 | ENSDARG00000021265.9 | ENSDART00000143184 | ENSDART00000143184.2 | mybpc2b | myosin binding protein C, fast type b [Source:ZFIN;Acc:ZDB-GENE-050320-80] | skeletal muscle | decreased length | abnormal | ZDB-PUB-160330-7 |
| OG0000943 | ENSDARG00000021265 | ENSDARG00000021265.9 | ENSDART00000143184 | ENSDART00000143184.2 | mybpc2b | myosin binding protein C, fast type b [Source:ZFIN;Acc:ZDB-GENE-050320-80] | skeletal muscle cell | decreased thickness | abnormal | ZDB-PUB-160330-7 |
| OG0000943 | ENSDARG00000021265 | ENSDARG00000021265.9 | ENSDART00000143184 | ENSDART00000143184.2 | mybpc2b | myosin binding protein C, fast type b [Source:ZFIN;Acc:ZDB-GENE-050320-80] | skeletal muscle cell | increased variability of size | abnormal | ZDB-PUB-160330-7 |
| OG0000943 | ENSDARG00000021265 | ENSDARG00000021265.9 | ENSDART00000143184 | ENSDART00000143184.2 | mybpc2b | myosin binding protein C, fast type b [Source:ZFIN;Acc:ZDB-GENE-050320-80] | skeletal muscle cell | decondensed | abnormal | ZDB-PUB-160330-7 |
| OG0000943 | ENSDARG00000021265 | ENSDARG00000021265.9 | ENSDART00000143184 | ENSDART00000143184.2 | mybpc2b | myosin binding protein C, fast type b [Source:ZFIN;Acc:ZDB-GENE-050320-80] | skeletal muscle cell | decreased length | abnormal | ZDB-PUB-160330-7 |
| OG0000943 | ENSDARG00000021265 | ENSDARG00000021265.9 | ENSDART00000143184 | ENSDART00000143184.2 | mybpc2b | myosin binding protein C, fast type b [Source:ZFIN;Acc:ZDB-GENE-050320-80] | trunk | increased amount | abnormal | ZDB-PUB-160330-7 |
| OG0000943 | ENSDARG00000021265 | ENSDARG00000021265.9 | ENSDART00000143184 | ENSDART00000143184.2 | mybpc2b | myosin binding protein C, fast type b [Source:ZFIN;Acc:ZDB-GENE-050320-80] | trunk | decreased amount | abnormal | ZDB-PUB-160330-7 |
| OG0000943 | ENSDARG00000021265 | ENSDARG00000021265.9 | ENSDART00000143184 | ENSDART00000143184.2 | mybpc2b | myosin binding protein C, fast type b [Source:ZFIN;Acc:ZDB-GENE-050320-80] | trunk | increased amount | abnormal | ZDB-PUB-160330-7 |
| OG0000943 | ENSDARG00000021265 | ENSDARG00000021265.9 | ENSDART00000143184 | ENSDART00000143184.2 | mybpc2b | myosin binding protein C, fast type b [Source:ZFIN;Acc:ZDB-GENE-050320-80] | trunk | decreased amount | abnormal | ZDB-PUB-160330-7 |
| OG0000943 | ENSDARG00000021265 | ENSDARG00000021265.9 | ENSDART00000143184 | ENSDART00000143184.2 | mybpc2b | myosin binding protein C, fast type b [Source:ZFIN;Acc:ZDB-GENE-050320-80] | trunk | decreased amount | abnormal | ZDB-PUB-160330-7 |
| OG0000943 | ENSDARG00000021265 | ENSDARG00000021265.9 | ENSDART00000143184 | ENSDART00000143184.2 | mybpc2b | myosin binding protein C, fast type b [Source:ZFIN;Acc:ZDB-GENE-050320-80] | trunk | increased amount | abnormal | ZDB-PUB-160330-7 |
| OG0000943 | ENSDARG00000021265 | ENSDARG00000021265.9 | ENSDART00000143184 | ENSDART00000143184.2 | mybpc2b | myosin binding protein C, fast type b [Source:ZFIN;Acc:ZDB-GENE-050320-80] | trunk | increased amount | abnormal | ZDB-PUB-160330-7 |
| OG0000943 | ENSDARG00000021265 | ENSDARG00000021265.9 | ENSDART00000143184 | ENSDART00000143184.2 | mybpc2b | myosin binding protein C, fast type b [Source:ZFIN;Acc:ZDB-GENE-050320-80] | trunk | increased amount | abnormal | ZDB-PUB-160330-7 |
| OG0000943 | ENSDARG00000021265 | ENSDARG00000021265.9 | ENSDART00000143184 | ENSDART00000143184.2 | mybpc2b | myosin binding protein C, fast type b [Source:ZFIN;Acc:ZDB-GENE-050320-80] | whole organism | decreased length | abnormal | ZDB-PUB-160330-7 |
| OG0003815 | ENSDARG00000045620 | ENSDARG00000045620.6 | ENSDART00000067086 | ENSDART00000067086.6 | nansa | N-acetylneuraminic acid synthase a [Source:ZFIN;Acc:ZDB-GENE-030131-1500] | basihyal cartilage | absent | abnormal | ZDB-PUB-160524-3 |
| OG0003815 | ENSDARG00000045620 | ENSDARG00000045620.6 | ENSDART00000067086 | ENSDART00000067086.6 | nansa | N-acetylneuraminic acid synthase a [Source:ZFIN;Acc:ZDB-GENE-030131-1500] | ceratobranchial cartilage | absent | abnormal | ZDB-PUB-160524-3 |
| OG0003815 | ENSDARG00000045620 | ENSDARG00000045620.6 | ENSDART00000067086 | ENSDART00000067086.6 | nansa | N-acetylneuraminic acid synthase a [Source:ZFIN;Acc:ZDB-GENE-030131-1500] | embryonic skeletal system development | disrupted | abnormal | ZDB-PUB-160524-3 |
| OG0003815 | ENSDARG00000045620 | ENSDARG00000045620.6 | ENSDART00000067086 | ENSDART00000067086.6 | nansa | N-acetylneuraminic acid synthase a [Source:ZFIN;Acc:ZDB-GENE-030131-1500] | ethmoid cartilage | morphology | abnormal | ZDB-PUB-160524-3 |
| OG0003815 | ENSDARG00000045620 | ENSDARG00000045620.6 | ENSDART00000067086 | ENSDART00000067086.6 | nansa | N-acetylneuraminic acid synthase a [Source:ZFIN;Acc:ZDB-GENE-030131-1500] | ethmoid cartilage | shortened | abnormal | ZDB-PUB-160524-3 |
| OG0003815 | ENSDARG00000045620 | ENSDARG00000045620.6 | ENSDART00000067086 | ENSDART00000067086.6 | nansa | N-acetylneuraminic acid synthase a [Source:ZFIN;Acc:ZDB-GENE-030131-1500] | head | decreased size | abnormal | ZDB-PUB-160524-3 |
| OG0003815 | ENSDARG00000045620 | ENSDARG00000045620.6 | ENSDART00000067086 | ENSDART00000067086.6 | nansa | N-acetylneuraminic acid synthase a [Source:ZFIN;Acc:ZDB-GENE-030131-1500] | Meckel’s cartilage | aplastic/hypoplastic | abnormal | ZDB-PUB-160524-3 |
| OG0003815 | ENSDARG00000045620 | ENSDARG00000045620.6 | ENSDART00000067086 | ENSDART00000067086.6 | nansa | N-acetylneuraminic acid synthase a [Source:ZFIN;Acc:ZDB-GENE-030131-1500] | palatoquadrate cartilage | morphology | abnormal | ZDB-PUB-160524-3 |
| OG0003815 | ENSDARG00000045620 | ENSDARG00000045620.6 | ENSDART00000067086 | ENSDART00000067086.6 | nansa | N-acetylneuraminic acid synthase a [Source:ZFIN;Acc:ZDB-GENE-030131-1500] | parachordal cartilage | morphology | abnormal | ZDB-PUB-160524-3 |
| OG0003815 | ENSDARG00000045620 | ENSDARG00000045620.6 | ENSDART00000067086 | ENSDART00000067086.6 | nansa | N-acetylneuraminic acid synthase a [Source:ZFIN;Acc:ZDB-GENE-030131-1500] | pericardium | edematous | abnormal | ZDB-PUB-160524-3 |
| OG0003815 | ENSDARG00000045620 | ENSDARG00000045620.6 | ENSDART00000067086 | ENSDART00000067086.6 | nansa | N-acetylneuraminic acid synthase a [Source:ZFIN;Acc:ZDB-GENE-030131-1500] | trabecula cranii | morphology | abnormal | ZDB-PUB-160524-3 |
| OG0001676 | ENSDARG00000105261 | ENSDARG00000105261.2 | ENSDART00000169456 | ENSDART00000169456.2 | nfkb1 | nuclear factor of kappa light polypeptide gene enhancer in B-cells 1 [Source:ZFIN;Acc:ZDB-GENE-121204-3] | startle response | increased magnitude | abnormal | ZDB-PUB-190402-7 |
| OG0001676 | ENSDARG00000038687 | ENSDARG00000038687.9 | ENSDART00000134122 | ENSDART00000134122.3 | nfkb2 | nuclear factor of kappa light polypeptide gene enhancer in B-cells 2 (p49/p100) [Source:ZFIN;Acc:ZDB-GENE-030131-6701] | hatching | decreased rate | abnormal | ZDB-PUB-180810-8 |
| OG0001676 | ENSDARG00000112821 | ENSDARG00000112821.1 | ENSDART00000184272 | ENSDART00000184272.1 | nfkb2 | nuclear factor of kappa light polypeptide gene enhancer in B-cells 2 (p49/p100) [Source:ZFIN;Acc:ZDB-GENE-030131-6701] | hatching | decreased rate | abnormal | ZDB-PUB-180810-8 |
| OG0001676 | ENSDARG00000038687 | ENSDARG00000038687.9 | ENSDART00000134122 | ENSDART00000134122.3 | nfkb2 | nuclear factor of kappa light polypeptide gene enhancer in B-cells 2 (p49/p100) [Source:ZFIN;Acc:ZDB-GENE-030131-6701] | intermediate cell mass of mesoderm | decreased amount | abnormal | ZDB-PUB-141230-19 |
| OG0001676 | ENSDARG00000038687 | ENSDARG00000038687.9 | ENSDART00000134122 | ENSDART00000134122.3 | nfkb2 | nuclear factor of kappa light polypeptide gene enhancer in B-cells 2 (p49/p100) [Source:ZFIN;Acc:ZDB-GENE-030131-6701] | intermediate cell mass of mesoderm | decreased amount | abnormal | ZDB-PUB-141230-19 |
| OG0001676 | ENSDARG00000038687 | ENSDARG00000038687.9 | ENSDART00000134122 | ENSDART00000134122.3 | nfkb2 | nuclear factor of kappa light polypeptide gene enhancer in B-cells 2 (p49/p100) [Source:ZFIN;Acc:ZDB-GENE-030131-6701] | intermediate cell mass of mesoderm | decreased amount | abnormal | ZDB-PUB-141230-19 |
| OG0001676 | ENSDARG00000038687 | ENSDARG00000038687.9 | ENSDART00000134122 | ENSDART00000134122.3 | nfkb2 | nuclear factor of kappa light polypeptide gene enhancer in B-cells 2 (p49/p100) [Source:ZFIN;Acc:ZDB-GENE-030131-6701] | intermediate cell mass of mesoderm | decreased amount | abnormal | ZDB-PUB-141230-19 |
| OG0001676 | ENSDARG00000038687 | ENSDARG00000038687.9 | ENSDART00000134122 | ENSDART00000134122.3 | nfkb2 | nuclear factor of kappa light polypeptide gene enhancer in B-cells 2 (p49/p100) [Source:ZFIN;Acc:ZDB-GENE-030131-6701] | intermediate cell mass of mesoderm | decreased amount | abnormal | ZDB-PUB-141230-19 |
| OG0001676 | ENSDARG00000112821 | ENSDARG00000112821.1 | ENSDART00000184272 | ENSDART00000184272.1 | nfkb2 | nuclear factor of kappa light polypeptide gene enhancer in B-cells 2 (p49/p100) [Source:ZFIN;Acc:ZDB-GENE-030131-6701] | intermediate cell mass of mesoderm | decreased amount | abnormal | ZDB-PUB-141230-19 |
| OG0001676 | ENSDARG00000112821 | ENSDARG00000112821.1 | ENSDART00000184272 | ENSDART00000184272.1 | nfkb2 | nuclear factor of kappa light polypeptide gene enhancer in B-cells 2 (p49/p100) [Source:ZFIN;Acc:ZDB-GENE-030131-6701] | intermediate cell mass of mesoderm | decreased amount | abnormal | ZDB-PUB-141230-19 |
| OG0001676 | ENSDARG00000112821 | ENSDARG00000112821.1 | ENSDART00000184272 | ENSDART00000184272.1 | nfkb2 | nuclear factor of kappa light polypeptide gene enhancer in B-cells 2 (p49/p100) [Source:ZFIN;Acc:ZDB-GENE-030131-6701] | intermediate cell mass of mesoderm | decreased amount | abnormal | ZDB-PUB-141230-19 |
| OG0001676 | ENSDARG00000112821 | ENSDARG00000112821.1 | ENSDART00000184272 | ENSDART00000184272.1 | nfkb2 | nuclear factor of kappa light polypeptide gene enhancer in B-cells 2 (p49/p100) [Source:ZFIN;Acc:ZDB-GENE-030131-6701] | intermediate cell mass of mesoderm | decreased amount | abnormal | ZDB-PUB-141230-19 |
| OG0001676 | ENSDARG00000112821 | ENSDARG00000112821.1 | ENSDART00000184272 | ENSDART00000184272.1 | nfkb2 | nuclear factor of kappa light polypeptide gene enhancer in B-cells 2 (p49/p100) [Source:ZFIN;Acc:ZDB-GENE-030131-6701] | intermediate cell mass of mesoderm | decreased amount | abnormal | ZDB-PUB-141230-19 |
| OG0001676 | ENSDARG00000038687 | ENSDARG00000038687.9 | ENSDART00000134122 | ENSDART00000134122.3 | nfkb2 | nuclear factor of kappa light polypeptide gene enhancer in B-cells 2 (p49/p100) [Source:ZFIN;Acc:ZDB-GENE-030131-6701] | intersegmental vessel | immature | abnormal | ZDB-PUB-170809-8 |
| OG0001676 | ENSDARG00000112821 | ENSDARG00000112821.1 | ENSDART00000184272 | ENSDART00000184272.1 | nfkb2 | nuclear factor of kappa light polypeptide gene enhancer in B-cells 2 (p49/p100) [Source:ZFIN;Acc:ZDB-GENE-030131-6701] | intersegmental vessel | immature | abnormal | ZDB-PUB-170809-8 |
| OG0001676 | ENSDARG00000038687 | ENSDARG00000038687.9 | ENSDART00000134122 | ENSDART00000134122.3 | nfkb2 | nuclear factor of kappa light polypeptide gene enhancer in B-cells 2 (p49/p100) [Source:ZFIN;Acc:ZDB-GENE-030131-6701] | trunk | branchiness | abnormal | ZDB-PUB-170809-8 |
| OG0001676 | ENSDARG00000112821 | ENSDARG00000112821.1 | ENSDART00000184272 | ENSDART00000184272.1 | nfkb2 | nuclear factor of kappa light polypeptide gene enhancer in B-cells 2 (p49/p100) [Source:ZFIN;Acc:ZDB-GENE-030131-6701] | trunk | branchiness | abnormal | ZDB-PUB-170809-8 |
| OG0001676 | ENSDARG00000038687 | ENSDARG00000038687.9 | ENSDART00000134122 | ENSDART00000134122.3 | nfkb2 | nuclear factor of kappa light polypeptide gene enhancer in B-cells 2 (p49/p100) [Source:ZFIN;Acc:ZDB-GENE-030131-6701] | whole organism | increased amount | abnormal | ZDB-PUB-180810-8 |
| OG0001676 | ENSDARG00000112821 | ENSDARG00000112821.1 | ENSDART00000184272 | ENSDART00000184272.1 | nfkb2 | nuclear factor of kappa light polypeptide gene enhancer in B-cells 2 (p49/p100) [Source:ZFIN;Acc:ZDB-GENE-030131-6701] | whole organism | increased amount | abnormal | ZDB-PUB-180810-8 |
| OG0002084 | ENSDARG00000098272 | ENSDARG00000098272.2 | ENSDART00000158447 | ENSDART00000158447.2 | nipbla | NIPBL cohesin loading factor a [Source:NCBI gene;Acc:570900] | blood circulation | disrupted | abnormal | ZDB-PUB-111114-19 |
| OG0002084 | ENSDARG00000098272 | ENSDARG00000098272.2 | ENSDART00000158447 | ENSDART00000158447.2 | nipbla | NIPBL cohesin loading factor a [Source:NCBI gene;Acc:570900] | pericardium | edematous | abnormal | ZDB-PUB-111114-19 |
| OG0002084 | ENSDARG00000098272 | ENSDARG00000098272.2 | ENSDART00000158447 | ENSDART00000158447.2 | nipbla | NIPBL cohesin loading factor a [Source:NCBI gene;Acc:570900] | pericardium | edematous | abnormal | ZDB-PUB-111114-19 |
| OG0002084 | ENSDARG00000098272 | ENSDARG00000098272.2 | ENSDART00000158447 | ENSDART00000158447.2 | nipbla | NIPBL cohesin loading factor a [Source:NCBI gene;Acc:570900] | post-vent region | decreased length | abnormal | ZDB-PUB-111114-19 |
| OG0002084 | ENSDARG00000098272 | ENSDARG00000098272.2 | ENSDART00000158447 | ENSDART00000158447.2 | nipbla | NIPBL cohesin loading factor a [Source:NCBI gene;Acc:570900] | post-vent region | branched | abnormal | ZDB-PUB-111114-19 |
| OG0002084 | ENSDARG00000098272 | ENSDARG00000098272.2 | ENSDART00000158447 | ENSDART00000158447.2 | nipbla | NIPBL cohesin loading factor a [Source:NCBI gene;Acc:570900] | post-vent region | decreased length | abnormal | ZDB-PUB-111114-19 |
| OG0002084 | ENSDARG00000061052 | ENSDARG00000061052.7 | ENSDART00000086861 | ENSDART00000086861.6 | nipblb | NIPBL cohesin loading factor b [Source:NCBI gene;Acc:794108] | apoptotic process | increased occurrence | abnormal | ZDB-PUB-131119-22 |
| OG0002084 | ENSDARG00000061052 | ENSDARG00000061052.7 | ENSDART00000086861 | ENSDART00000086861.6 | nipblb | NIPBL cohesin loading factor b [Source:NCBI gene;Acc:794108] | brain | decreased size | abnormal | ZDB-PUB-131119-22 |
| OG0002084 | ENSDARG00000061052 | ENSDARG00000061052.7 | ENSDART00000086861 | ENSDART00000086861.6 | nipblb | NIPBL cohesin loading factor b [Source:NCBI gene;Acc:794108] | caudal hematopoietic tissue | increased amount | abnormal | ZDB-PUB-190113-12 |
| OG0002084 | ENSDARG00000061052 | ENSDARG00000061052.7 | ENSDART00000086861 | ENSDART00000086861.6 | nipblb | NIPBL cohesin loading factor b [Source:NCBI gene;Acc:794108] | caudal hematopoietic tissue | increased amount | abnormal | ZDB-PUB-190113-12 |
| OG0002084 | ENSDARG00000061052 | ENSDARG00000061052.7 | ENSDART00000086861 | ENSDART00000086861.6 | nipblb | NIPBL cohesin loading factor b [Source:NCBI gene;Acc:794108] | caudal hematopoietic tissue | increased amount | abnormal | ZDB-PUB-190113-12 |
| OG0002084 | ENSDARG00000061052 | ENSDARG00000061052.7 | ENSDART00000086861 | ENSDART00000086861.6 | nipblb | NIPBL cohesin loading factor b [Source:NCBI gene;Acc:794108] | caudal hematopoietic tissue | increased amount | abnormal | ZDB-PUB-190113-12 |
| OG0002084 | ENSDARG00000061052 | ENSDARG00000061052.7 | ENSDART00000086861 | ENSDART00000086861.6 | nipblb | NIPBL cohesin loading factor b [Source:NCBI gene;Acc:794108] | caudal hematopoietic tissue | increased occurrence | abnormal | ZDB-PUB-190113-12 |
| OG0002084 | ENSDARG00000061052 | ENSDARG00000061052.7 | ENSDART00000086861 | ENSDART00000086861.6 | nipblb | NIPBL cohesin loading factor b [Source:NCBI gene;Acc:794108] | caudal hematopoietic tissue | increased amount | abnormal | ZDB-PUB-190113-12 |
| OG0002084 | ENSDARG00000061052 | ENSDARG00000061052.7 | ENSDART00000086861 | ENSDART00000086861.6 | nipblb | NIPBL cohesin loading factor b [Source:NCBI gene;Acc:794108] | caudal hematopoietic tissue | decreased amount | abnormal | ZDB-PUB-190113-12 |
| OG0002084 | ENSDARG00000061052 | ENSDARG00000061052.7 | ENSDART00000086861 | ENSDART00000086861.6 | nipblb | NIPBL cohesin loading factor b [Source:NCBI gene;Acc:794108] | cell population proliferation | disrupted | abnormal | ZDB-PUB-150725-3 |
| OG0002084 | ENSDARG00000061052 | ENSDARG00000061052.7 | ENSDART00000086861 | ENSDART00000086861.6 | nipblb | NIPBL cohesin loading factor b [Source:NCBI gene;Acc:794108] | central nervous system development | disrupted | abnormal | ZDB-PUB-131119-22 |
| OG0002084 | ENSDARG00000061052 | ENSDARG00000061052.7 | ENSDART00000086861 | ENSDART00000086861.6 | nipblb | NIPBL cohesin loading factor b [Source:NCBI gene;Acc:794108] | eye | decreased size | abnormal | ZDB-PUB-131119-22 |
| OG0002084 | ENSDARG00000061052 | ENSDARG00000061052.7 | ENSDART00000086861 | ENSDART00000086861.6 | nipblb | NIPBL cohesin loading factor b [Source:NCBI gene;Acc:794108] | hematopoietic stem cell | increased occurrence | abnormal | ZDB-PUB-190113-12 |
| OG0002084 | ENSDARG00000061052 | ENSDARG00000061052.7 | ENSDART00000086861 | ENSDART00000086861.6 | nipblb | NIPBL cohesin loading factor b [Source:NCBI gene;Acc:794108] | neural tube | increased occurrence | abnormal | ZDB-PUB-150725-3 |
| OG0002084 | ENSDARG00000061052 | ENSDARG00000061052.7 | ENSDART00000086861 | ENSDART00000086861.6 | nipblb | NIPBL cohesin loading factor b [Source:NCBI gene;Acc:794108] | neural tube | apoptotic | abnormal | ZDB-PUB-131119-22 |
| OG0002084 | ENSDARG00000061052 | ENSDARG00000061052.7 | ENSDART00000086861 | ENSDART00000086861.6 | nipblb | NIPBL cohesin loading factor b [Source:NCBI gene;Acc:794108] | nucleate erythrocyte | decreased amount | abnormal | ZDB-PUB-200424-6 |
| OG0002084 | ENSDARG00000061052 | ENSDARG00000061052.7 | ENSDART00000086861 | ENSDART00000086861.6 | nipblb | NIPBL cohesin loading factor b [Source:NCBI gene;Acc:794108] | post-vent region | curved | abnormal | ZDB-PUB-131119-22 |
| OG0002084 | ENSDARG00000061052 | ENSDARG00000061052.7 | ENSDART00000086861 | ENSDART00000086861.6 | nipblb | NIPBL cohesin loading factor b [Source:NCBI gene;Acc:794108] | post-vent region | decreased length | abnormal | ZDB-PUB-131119-22 |
| OG0002084 | ENSDARG00000061052 | ENSDARG00000061052.7 | ENSDART00000086861 | ENSDART00000086861.6 | nipblb | NIPBL cohesin loading factor b [Source:NCBI gene;Acc:794108] | regulation of canonical Wnt signaling pathway | disrupted | abnormal | ZDB-PUB-131119-22 |
| OG0002084 | ENSDARG00000061052 | ENSDARG00000061052.7 | ENSDART00000086861 | ENSDART00000086861.6 | nipblb | NIPBL cohesin loading factor b [Source:NCBI gene;Acc:794108] | ventral wall of dorsal aorta | decreased amount | abnormal | ZDB-PUB-200424-6 |
| OG0002084 | ENSDARG00000061052 | ENSDARG00000061052.7 | ENSDART00000086861 | ENSDART00000086861.6 | nipblb | NIPBL cohesin loading factor b [Source:NCBI gene;Acc:794108] | whole organism | increased amount | abnormal | ZDB-PUB-200424-6 |
| OG0002084 | ENSDARG00000061052 | ENSDARG00000061052.7 | ENSDART00000086861 | ENSDART00000086861.6 | nipblb | NIPBL cohesin loading factor b [Source:NCBI gene;Acc:794108] | whole organism | increased amount | abnormal | ZDB-PUB-190113-12 |
| OG0002084 | ENSDARG00000061052 | ENSDARG00000061052.7 | ENSDART00000086861 | ENSDART00000086861.6 | nipblb | NIPBL cohesin loading factor b [Source:NCBI gene;Acc:794108] | whole organism | decreased amount | abnormal | ZDB-PUB-150725-3 |
| OG0002084 | ENSDARG00000061052 | ENSDARG00000061052.7 | ENSDART00000086861 | ENSDART00000086861.6 | nipblb | NIPBL cohesin loading factor b [Source:NCBI gene;Acc:794108] | whole organism | increased amount | abnormal | ZDB-PUB-200424-6 |
| OG0002084 | ENSDARG00000061052 | ENSDARG00000061052.7 | ENSDART00000086861 | ENSDART00000086861.6 | nipblb | NIPBL cohesin loading factor b [Source:NCBI gene;Acc:794108] | whole organism | decreased amount | abnormal | ZDB-PUB-200424-6 |
| OG0000460 | ENSDARG00000010192 | ENSDARG00000010192.8 | ENSDART00000014350 | ENSDART00000014350.7 | pax3a | paired box 3a [Source:ZFIN;Acc:ZDB-GENE-980526-52] | cranial neural crest | morphology | abnormal | ZDB-PUB-080422-3 |
| OG0000460 | ENSDARG00000010192 | ENSDARG00000010192.8 | ENSDART00000014350 | ENSDART00000014350.7 | pax3a | paired box 3a [Source:ZFIN;Acc:ZDB-GENE-980526-52] | cranial neural crest cell | decreased amount | abnormal | ZDB-PUB-080422-3 |
| OG0000460 | ENSDARG00000010192 | ENSDARG00000010192.8 | ENSDART00000014350 | ENSDART00000014350.7 | pax3a | paired box 3a [Source:ZFIN;Acc:ZDB-GENE-980526-52] | dorsal root ganglion | mislocalised dorsally | abnormal | ZDB-PUB-080422-3 |
| OG0000460 | ENSDARG00000010192 | ENSDARG00000010192.8 | ENSDART00000014350 | ENSDART00000014350.7 | pax3a | paired box 3a [Source:ZFIN;Acc:ZDB-GENE-980526-52] | enteric nervous system | absent | abnormal | ZDB-PUB-080422-3 |
| OG0000460 | ENSDARG00000010192 | ENSDARG00000010192.8 | ENSDART00000014350 | ENSDART00000014350.7 | pax3a | paired box 3a [Source:ZFIN;Acc:ZDB-GENE-980526-52] | enteric nervous system development | disrupted | abnormal | ZDB-PUB-080422-3 |
| OG0000460 | ENSDARG00000010192 | ENSDARG00000010192.8 | ENSDART00000014350 | ENSDART00000014350.7 | pax3a | paired box 3a [Source:ZFIN;Acc:ZDB-GENE-980526-52] | head | decreased amount | abnormal | ZDB-PUB-080422-3 |
| OG0000460 | ENSDARG00000010192 | ENSDARG00000010192.8 | ENSDART00000014350 | ENSDART00000014350.7 | pax3a | paired box 3a [Source:ZFIN;Acc:ZDB-GENE-980526-52] | head | decreased amount | abnormal | ZDB-PUB-080422-3 |
| OG0000460 | ENSDARG00000010192 | ENSDARG00000010192.8 | ENSDART00000014350 | ENSDART00000014350.7 | pax3a | paired box 3a [Source:ZFIN;Acc:ZDB-GENE-980526-52] | head | decreased amount | abnormal | ZDB-PUB-080422-3 |
| OG0000460 | ENSDARG00000010192 | ENSDARG00000010192.8 | ENSDART00000014350 | ENSDART00000014350.7 | pax3a | paired box 3a [Source:ZFIN;Acc:ZDB-GENE-980526-52] | medial rectus | aplastic | abnormal | ZDB-PUB-090505-16 |
| OG0000460 | ENSDARG00000010192 | ENSDARG00000010192.8 | ENSDART00000014350 | ENSDART00000014350.7 | pax3a | paired box 3a [Source:ZFIN;Acc:ZDB-GENE-980526-52] | melanoblast | decreased amount | abnormal | ZDB-PUB-080422-3 |
| OG0000460 | ENSDARG00000010192 | ENSDARG00000010192.8 | ENSDART00000014350 | ENSDART00000014350.7 | pax3a | paired box 3a [Source:ZFIN;Acc:ZDB-GENE-980526-52] | melanocyte differentiation | delayed | abnormal | ZDB-PUB-080422-3 |
| OG0000460 | ENSDARG00000010192 | ENSDARG00000010192.8 | ENSDART00000014350 | ENSDART00000014350.7 | pax3a | paired box 3a [Source:ZFIN;Acc:ZDB-GENE-980526-52] | melanocyte differentiation | delayed | abnormal | ZDB-PUB-080422-3 |
| OG0000460 | ENSDARG00000010192 | ENSDARG00000010192.8 | ENSDART00000014350 | ENSDART00000014350.7 | pax3a | paired box 3a [Source:ZFIN;Acc:ZDB-GENE-980526-52] | melanocyte differentiation | delayed | abnormal | ZDB-PUB-080422-3 |
| OG0000460 | ENSDARG00000010192 | ENSDARG00000010192.8 | ENSDART00000014350 | ENSDART00000014350.7 | pax3a | paired box 3a [Source:ZFIN;Acc:ZDB-GENE-980526-52] | melanocyte differentiation | delayed | abnormal | ZDB-PUB-080422-3 |
| OG0000460 | ENSDARG00000010192 | ENSDARG00000010192.8 | ENSDART00000014350 | ENSDART00000014350.7 | pax3a | paired box 3a [Source:ZFIN;Acc:ZDB-GENE-980526-52] | melanophore stripe | increased amount | abnormal | ZDB-PUB-080422-3 |
| OG0000460 | ENSDARG00000010192 | ENSDARG00000010192.8 | ENSDART00000014350 | ENSDART00000014350.7 | pax3a | paired box 3a [Source:ZFIN;Acc:ZDB-GENE-980526-52] | neural crest cell | delaminated | abnormal | ZDB-PUB-080422-3 |
| OG0000460 | ENSDARG00000010192 | ENSDARG00000010192.8 | ENSDART00000014350 | ENSDART00000014350.7 | pax3a | paired box 3a [Source:ZFIN;Acc:ZDB-GENE-980526-52] | neural crest cell migration | disrupted | abnormal | ZDB-PUB-080422-3 |
| OG0000460 | ENSDARG00000010192 | ENSDARG00000010192.8 | ENSDART00000014350 | ENSDART00000014350.7 | pax3a | paired box 3a [Source:ZFIN;Acc:ZDB-GENE-980526-52] | neural plate | morphology | abnormal | ZDB-PUB-080422-3 |
| OG0000460 | ENSDARG00000010192 | ENSDARG00000010192.8 | ENSDART00000014350 | ENSDART00000014350.7 | pax3a | paired box 3a [Source:ZFIN;Acc:ZDB-GENE-980526-52] | pharyngeal arch | aplastic | abnormal | ZDB-PUB-090505-16 |
| OG0000460 | ENSDARG00000010192 | ENSDARG00000010192.8 | ENSDART00000014350 | ENSDART00000014350.7 | pax3a | paired box 3a [Source:ZFIN;Acc:ZDB-GENE-980526-52] | presumptive enteric nervous system | decreased amount | abnormal | ZDB-PUB-080422-3 |
| OG0000460 | ENSDARG00000010192 | ENSDARG00000010192.8 | ENSDART00000014350 | ENSDART00000014350.7 | pax3a | paired box 3a [Source:ZFIN;Acc:ZDB-GENE-980526-52] | sternohyoid | aplastic | abnormal | ZDB-PUB-090505-16 |
| OG0000460 | ENSDARG00000010192 | ENSDARG00000010192.8 | ENSDART00000014350 | ENSDART00000014350.7 | pax3a | paired box 3a [Source:ZFIN;Acc:ZDB-GENE-980526-52] | trunk | decreased size | abnormal | ZDB-PUB-080422-3 |
| OG0000460 | ENSDARG00000010192 | ENSDARG00000010192.8 | ENSDART00000014350 | ENSDART00000014350.7 | pax3a | paired box 3a [Source:ZFIN;Acc:ZDB-GENE-980526-52] | trunk | colorless | abnormal | ZDB-PUB-080422-3 |
| OG0000460 | ENSDARG00000010192 | ENSDARG00000010192.8 | ENSDART00000014350 | ENSDART00000014350.7 | pax3a | paired box 3a [Source:ZFIN;Acc:ZDB-GENE-980526-52] | trunk | absent | abnormal | ZDB-PUB-080422-3 |
| OG0000460 | ENSDARG00000010192 | ENSDARG00000010192.8 | ENSDART00000014350 | ENSDART00000014350.7 | pax3a | paired box 3a [Source:ZFIN;Acc:ZDB-GENE-980526-52] | trunk | increased amount | abnormal | ZDB-PUB-080422-3 |
| OG0000460 | ENSDARG00000010192 | ENSDARG00000010192.8 | ENSDART00000014350 | ENSDART00000014350.7 | pax3a | paired box 3a [Source:ZFIN;Acc:ZDB-GENE-980526-52] | trunk | mislocalised | abnormal | ZDB-PUB-080422-3 |
| OG0000460 | ENSDARG00000010192 | ENSDARG00000010192.8 | ENSDART00000014350 | ENSDART00000014350.7 | pax3a | paired box 3a [Source:ZFIN;Acc:ZDB-GENE-980526-52] | trunk | colorless | abnormal | ZDB-PUB-080422-3 |
| OG0000460 | ENSDARG00000010192 | ENSDARG00000010192.8 | ENSDART00000014350 | ENSDART00000014350.7 | pax3a | paired box 3a [Source:ZFIN;Acc:ZDB-GENE-980526-52] | trunk | absent | abnormal | ZDB-PUB-080422-3 |
| OG0000460 | ENSDARG00000010192 | ENSDARG00000010192.8 | ENSDART00000014350 | ENSDART00000014350.7 | pax3a | paired box 3a [Source:ZFIN;Acc:ZDB-GENE-980526-52] | trunk | absent | abnormal | ZDB-PUB-080422-3 |
| OG0000460 | ENSDARG00000010192 | ENSDARG00000010192.8 | ENSDART00000014350 | ENSDART00000014350.7 | pax3a | paired box 3a [Source:ZFIN;Acc:ZDB-GENE-980526-52] | trunk neural crest cell | decreased amount | abnormal | ZDB-PUB-080422-3 |
| OG0000460 | ENSDARG00000010192 | ENSDARG00000010192.8 | ENSDART00000014350 | ENSDART00000014350.7 | pax3a | paired box 3a [Source:ZFIN;Acc:ZDB-GENE-980526-52] | trunk neural crest cell | decreased amount | abnormal | ZDB-PUB-080422-3 |
| OG0000460 | ENSDARG00000010192 | ENSDARG00000010192.8 | ENSDART00000014350 | ENSDART00000014350.7 | pax3a | paired box 3a [Source:ZFIN;Acc:ZDB-GENE-980526-52] | ventral rectus | aplastic | abnormal | ZDB-PUB-090505-16 |
| OG0000460 | ENSDARG00000010192 | ENSDARG00000010192.8 | ENSDART00000014350 | ENSDART00000014350.7 | pax3a | paired box 3a [Source:ZFIN;Acc:ZDB-GENE-980526-52] | xanthophore | decreased amount | abnormal | ZDB-PUB-080422-3 |
| OG0000460 | ENSDARG00000010192 | ENSDARG00000010192.8 | ENSDART00000014350 | ENSDART00000014350.7 | pax3a | paired box 3a [Source:ZFIN;Acc:ZDB-GENE-980526-52] | xanthophore | decreased amount | abnormal | ZDB-PUB-080422-3 |
| OG0000460 | ENSDARG00000010192 | ENSDARG00000010192.8 | ENSDART00000014350 | ENSDART00000014350.7 | pax3a | paired box 3a [Source:ZFIN;Acc:ZDB-GENE-980526-52] | xanthophore differentiation | disrupted | abnormal | ZDB-PUB-080422-3 |
| OG0000460 | ENSDARG00000010192 | ENSDARG00000010192.8 | ENSDART00000014350 | ENSDART00000014350.7 | pax3a | paired box 3a [Source:ZFIN;Acc:ZDB-GENE-980526-52] | xanthophore differentiation | disrupted | abnormal | ZDB-PUB-080422-3 |
| OG0000460 | ENSDARG00000010192 | ENSDARG00000010192.8 | ENSDART00000014350 | ENSDART00000014350.7 | pax3a | paired box 3a [Source:ZFIN;Acc:ZDB-GENE-980526-52] | xanthophore differentiation | disrupted | abnormal | ZDB-PUB-080422-3 |
| OG0000460 | ENSDARG00000010192 | ENSDARG00000010192.8 | ENSDART00000014350 | ENSDART00000014350.7 | pax3a | paired box 3a [Source:ZFIN;Acc:ZDB-GENE-980526-52] | xanthophore differentiation | disrupted | abnormal | ZDB-PUB-080422-3 |
| OG0000460 | ENSDARG00000028348 | ENSDARG00000028348.9 | ENSDART00000015843 | ENSDART00000015843.9 | pax3b | paired box 3b [Source:ZFIN;Acc:ZDB-GENE-080917-53] | branchiomeric skeletal muscle development | decreased process quality | abnormal | ZDB-PUB-130709-61 |
| OG0000460 | ENSDARG00000028348 | ENSDARG00000028348.9 | ENSDART00000015843 | ENSDART00000015843.9 | pax3b | paired box 3b [Source:ZFIN;Acc:ZDB-GENE-080917-53] | branchiomeric skeletal muscle development | decreased process quality | abnormal | ZDB-PUB-130709-61 |
| OG0000460 | ENSDARG00000028348 | ENSDARG00000028348.9 | ENSDART00000015843 | ENSDART00000015843.9 | pax3b | paired box 3b [Source:ZFIN;Acc:ZDB-GENE-080917-53] | branchiomeric skeletal muscle development | decreased process quality | abnormal | ZDB-PUB-130709-61 |
| OG0000460 | ENSDARG00000028348 | ENSDARG00000028348.9 | ENSDART00000015843 | ENSDART00000015843.9 | pax3b | paired box 3b [Source:ZFIN;Acc:ZDB-GENE-080917-53] | branchiomeric skeletal muscle development | decreased process quality | abnormal | ZDB-PUB-130709-61 |
| OG0000460 | ENSDARG00000028348 | ENSDARG00000028348.9 | ENSDART00000015843 | ENSDART00000015843.9 | pax3b | paired box 3b [Source:ZFIN;Acc:ZDB-GENE-080917-53] | esophagus | lacks parts or has fewer parts of type | abnormal | ZDB-PUB-130709-61 |
| OG0000460 | ENSDARG00000028348 | ENSDARG00000028348.9 | ENSDART00000015843 | ENSDART00000015843.9 | pax3b | paired box 3b [Source:ZFIN;Acc:ZDB-GENE-080917-53] | esophagus | poorly differentiated | abnormal | ZDB-PUB-130709-61 |
| OG0000460 | ENSDARG00000028348 | ENSDARG00000028348.9 | ENSDART00000015843 | ENSDART00000015843.9 | pax3b | paired box 3b [Source:ZFIN;Acc:ZDB-GENE-080917-53] | esophagus | poorly differentiated | abnormal | ZDB-PUB-130709-61 |
| OG0000460 | ENSDARG00000028348 | ENSDARG00000028348.9 | ENSDART00000015843 | ENSDART00000015843.9 | pax3b | paired box 3b [Source:ZFIN;Acc:ZDB-GENE-080917-53] | mastication | decreased process quality | abnormal | ZDB-PUB-130709-61 |
| OG0000460 | ENSDARG00000028348 | ENSDARG00000028348.9 | ENSDART00000015843 | ENSDART00000015843.9 | pax3b | paired box 3b [Source:ZFIN;Acc:ZDB-GENE-080917-53] | pectoral fin musculature | disorganized | abnormal | ZDB-PUB-130709-61 |
| OG0000460 | ENSDARG00000028348 | ENSDARG00000028348.9 | ENSDART00000015843 | ENSDART00000015843.9 | pax3b | paired box 3b [Source:ZFIN;Acc:ZDB-GENE-080917-53] | pectoral fin musculature | decreased size | abnormal | ZDB-PUB-130709-61 |
| OG0000460 | ENSDARG00000028348 | ENSDARG00000028348.9 | ENSDART00000015843 | ENSDART00000015843.9 | pax3b | paired box 3b [Source:ZFIN;Acc:ZDB-GENE-080917-53] | sternohyoid | decreased size | abnormal | ZDB-PUB-130709-61 |
| OG0000460 | ENSDARG00000028348 | ENSDARG00000028348.9 | ENSDART00000015843 | ENSDART00000015843.9 | pax3b | paired box 3b [Source:ZFIN;Acc:ZDB-GENE-080917-53] | sternohyoid | disorganized | abnormal | ZDB-PUB-130709-61 |
| OG0000460 | ENSDARG00000100398 | ENSDARG00000100398.3 | ENSDART00000172008 | ENSDART00000172008.3 | pax7a | paired box 7a [Source:ZFIN;Acc:ZDB-GENE-990415-201] | developmental pigmentation | disrupted | abnormal | ZDB-PUB-080422-3 |
| OG0000460 | ENSDARG00000111233 | ENSDARG00000111233.1 | ENSDART00000190654 | ENSDART00000190654.1 | pax7a | paired box 7a [Source:ZFIN;Acc:ZDB-GENE-990415-201] | developmental pigmentation | disrupted | abnormal | ZDB-PUB-080422-3 |
| OG0000460 | ENSDARG00000100398 | ENSDARG00000100398.3 | ENSDART00000172008 | ENSDART00000172008.3 | pax7a | paired box 7a [Source:ZFIN;Acc:ZDB-GENE-990415-201] | head | colored | abnormal | ZDB-PUB-080422-3 |
| OG0000460 | ENSDARG00000111233 | ENSDARG00000111233.1 | ENSDART00000190654 | ENSDART00000190654.1 | pax7a | paired box 7a [Source:ZFIN;Acc:ZDB-GENE-990415-201] | head | colored | abnormal | ZDB-PUB-080422-3 |
| OG0000460 | ENSDARG00000100398 | ENSDARG00000100398.3 | ENSDART00000172008 | ENSDART00000172008.3 | pax7a | paired box 7a [Source:ZFIN;Acc:ZDB-GENE-990415-201] | pectoral fin | decreased amount | abnormal | ZDB-PUB-210827-6 |
| OG0000460 | ENSDARG00000100398 | ENSDARG00000100398.3 | ENSDART00000172008 | ENSDART00000172008.3 | pax7a | paired box 7a [Source:ZFIN;Acc:ZDB-GENE-990415-201] | pectoral fin | decreased amount | abnormal | ZDB-PUB-210827-6 |
| OG0000460 | ENSDARG00000111233 | ENSDARG00000111233.1 | ENSDART00000190654 | ENSDART00000190654.1 | pax7a | paired box 7a [Source:ZFIN;Acc:ZDB-GENE-990415-201] | pectoral fin | decreased amount | abnormal | ZDB-PUB-210827-6 |
| OG0000460 | ENSDARG00000111233 | ENSDARG00000111233.1 | ENSDART00000190654 | ENSDART00000190654.1 | pax7a | paired box 7a [Source:ZFIN;Acc:ZDB-GENE-990415-201] | pectoral fin | decreased amount | abnormal | ZDB-PUB-210827-6 |
| OG0000460 | ENSDARG00000100398 | ENSDARG00000100398.3 | ENSDART00000172008 | ENSDART00000172008.3 | pax7a | paired box 7a [Source:ZFIN;Acc:ZDB-GENE-990415-201] | trunk | colored | abnormal | ZDB-PUB-080422-3 |
| OG0000460 | ENSDARG00000111233 | ENSDARG00000111233.1 | ENSDART00000190654 | ENSDART00000190654.1 | pax7a | paired box 7a [Source:ZFIN;Acc:ZDB-GENE-990415-201] | trunk | colored | abnormal | ZDB-PUB-080422-3 |
| OG0000460 | ENSDARG00000100398 | ENSDARG00000100398.3 | ENSDART00000172008 | ENSDART00000172008.3 | pax7a | paired box 7a [Source:ZFIN;Acc:ZDB-GENE-990415-201] | xanthophore | morphology | abnormal | ZDB-PUB-080422-3 |
| OG0000460 | ENSDARG00000111233 | ENSDARG00000111233.1 | ENSDART00000190654 | ENSDART00000190654.1 | pax7a | paired box 7a [Source:ZFIN;Acc:ZDB-GENE-990415-201] | xanthophore | morphology | abnormal | ZDB-PUB-080422-3 |
| OG0000460 | ENSDARG00000070818 | ENSDARG00000070818.5 | ENSDART00000167014 | ENSDART00000167014.2 | pax7b | paired box 7b [Source:ZFIN;Acc:ZDB-GENE-080917-54] | pectoral fin | decreased amount | abnormal | ZDB-PUB-210827-6 |
| OG0000460 | ENSDARG00000070818 | ENSDARG00000070818.5 | ENSDART00000167014 | ENSDART00000167014.2 | pax7b | paired box 7b [Source:ZFIN;Acc:ZDB-GENE-080917-54] | pectoral fin | decreased amount | abnormal | ZDB-PUB-210827-6 |
| OG0002108 | ENSDARG00000079756 | ENSDARG00000079756.5 | ENSDART00000111151 | ENSDART00000111151.4 | peak1 | pseudopodium-enriched atypical kinase 1 [Source:ZFIN;Acc:ZDB-GENE-100422-1] | angiogenic sprout | disorganized | abnormal | ZDB-PUB-180607-5 |
| OG0002108 | ENSDARG00000079756 | ENSDARG00000079756.5 | ENSDART00000111151 | ENSDART00000111151.4 | peak1 | pseudopodium-enriched atypical kinase 1 [Source:ZFIN;Acc:ZDB-GENE-100422-1] | angiogenic sprout | disorganized | abnormal | ZDB-PUB-180607-5 |
| OG0002108 | ENSDARG00000079756 | ENSDARG00000079756.5 | ENSDART00000111151 | ENSDART00000111151.4 | peak1 | pseudopodium-enriched atypical kinase 1 [Source:ZFIN;Acc:ZDB-GENE-100422-1] | angiogenic sprout | disorganized | abnormal | ZDB-PUB-180607-5 |
| OG0002108 | ENSDARG00000079756 | ENSDARG00000079756.5 | ENSDART00000111151 | ENSDART00000111151.4 | peak1 | pseudopodium-enriched atypical kinase 1 [Source:ZFIN;Acc:ZDB-GENE-100422-1] | blood | accumulation | abnormal | ZDB-PUB-180607-5 |
| OG0002108 | ENSDARG00000079756 | ENSDARG00000079756.5 | ENSDART00000111151 | ENSDART00000111151.4 | peak1 | pseudopodium-enriched atypical kinase 1 [Source:ZFIN;Acc:ZDB-GENE-100422-1] | blood circulation | disrupted | abnormal | ZDB-PUB-180607-5 |
| OG0002108 | ENSDARG00000079756 | ENSDARG00000079756.5 | ENSDART00000111151 | ENSDART00000111151.4 | peak1 | pseudopodium-enriched atypical kinase 1 [Source:ZFIN;Acc:ZDB-GENE-100422-1] | blood circulation | disrupted | abnormal | ZDB-PUB-180607-5 |
| OG0002108 | ENSDARG00000079756 | ENSDARG00000079756.5 | ENSDART00000111151 | ENSDART00000111151.4 | peak1 | pseudopodium-enriched atypical kinase 1 [Source:ZFIN;Acc:ZDB-GENE-100422-1] | blood vessel endothelial cell | disrupted | abnormal | ZDB-PUB-180607-5 |
| OG0002108 | ENSDARG00000079756 | ENSDARG00000079756.5 | ENSDART00000111151 | ENSDART00000111151.4 | peak1 | pseudopodium-enriched atypical kinase 1 [Source:ZFIN;Acc:ZDB-GENE-100422-1] | dorsal longitudinal anastomotic vessel | agenesis | abnormal | ZDB-PUB-180607-5 |
| OG0002108 | ENSDARG00000079756 | ENSDARG00000079756.5 | ENSDART00000111151 | ENSDART00000111151.4 | peak1 | pseudopodium-enriched atypical kinase 1 [Source:ZFIN;Acc:ZDB-GENE-100422-1] | intersegmental vessel | has fewer parts of type | abnormal | ZDB-PUB-180607-5 |
| OG0002108 | ENSDARG00000079756 | ENSDARG00000079756.5 | ENSDART00000111151 | ENSDART00000111151.4 | peak1 | pseudopodium-enriched atypical kinase 1 [Source:ZFIN;Acc:ZDB-GENE-100422-1] | intersegmental vessel | decreased length | abnormal | ZDB-PUB-180607-5 |
| OG0002108 | ENSDARG00000079756 | ENSDARG00000079756.5 | ENSDART00000111151 | ENSDART00000111151.4 | peak1 | pseudopodium-enriched atypical kinase 1 [Source:ZFIN;Acc:ZDB-GENE-100422-1] | intersegmental vessel | decreased length | abnormal | ZDB-PUB-180607-5 |
| OG0002108 | ENSDARG00000079756 | ENSDARG00000079756.5 | ENSDART00000111151 | ENSDART00000111151.4 | peak1 | pseudopodium-enriched atypical kinase 1 [Source:ZFIN;Acc:ZDB-GENE-100422-1] | intersegmental vessel | decreased length | abnormal | ZDB-PUB-180607-5 |
| OG0002108 | ENSDARG00000079756 | ENSDARG00000079756.5 | ENSDART00000111151 | ENSDART00000111151.4 | peak1 | pseudopodium-enriched atypical kinase 1 [Source:ZFIN;Acc:ZDB-GENE-100422-1] | intersegmental vessel | decreased length | abnormal | ZDB-PUB-180607-5 |
| OG0002108 | ENSDARG00000079756 | ENSDARG00000079756.5 | ENSDART00000111151 | ENSDART00000111151.4 | peak1 | pseudopodium-enriched atypical kinase 1 [Source:ZFIN;Acc:ZDB-GENE-100422-1] | intersegmental vessel | morphology | abnormal | ZDB-PUB-180607-5 |
| OG0002108 | ENSDARG00000079756 | ENSDARG00000079756.5 | ENSDART00000111151 | ENSDART00000111151.4 | peak1 | pseudopodium-enriched atypical kinase 1 [Source:ZFIN;Acc:ZDB-GENE-100422-1] | pericardium | edematous | abnormal | ZDB-PUB-180607-5 |
| OG0002108 | ENSDARG00000079756 | ENSDARG00000079756.5 | ENSDART00000111151 | ENSDART00000111151.4 | peak1 | pseudopodium-enriched atypical kinase 1 [Source:ZFIN;Acc:ZDB-GENE-100422-1] | subintestinal vein | decreased length | abnormal | ZDB-PUB-180607-5 |
| OG0002108 | ENSDARG00000079756 | ENSDARG00000079756.5 | ENSDART00000111151 | ENSDART00000111151.4 | peak1 | pseudopodium-enriched atypical kinase 1 [Source:ZFIN;Acc:ZDB-GENE-100422-1] | subintestinal vein | morphology | abnormal | ZDB-PUB-180607-5 |
| OG0002108 | ENSDARG00000079756 | ENSDARG00000079756.5 | ENSDART00000111151 | ENSDART00000111151.4 | peak1 | pseudopodium-enriched atypical kinase 1 [Source:ZFIN;Acc:ZDB-GENE-100422-1] | subintestinal vein | morphology | abnormal | ZDB-PUB-180607-5 |
| OG0002108 | ENSDARG00000079756 | ENSDARG00000079756.5 | ENSDART00000111151 | ENSDART00000111151.4 | peak1 | pseudopodium-enriched atypical kinase 1 [Source:ZFIN;Acc:ZDB-GENE-100422-1] | subintestinal vein | decreased length | abnormal | ZDB-PUB-180607-5 |
| OG0002108 | ENSDARG00000079756 | ENSDARG00000079756.5 | ENSDART00000111151 | ENSDART00000111151.4 | peak1 | pseudopodium-enriched atypical kinase 1 [Source:ZFIN;Acc:ZDB-GENE-100422-1] | whole organism | absent | abnormal | ZDB-PUB-180607-5 |
| OG0007365 | ENSDARG00000102249 | ENSDARG00000102249.2 | ENSDART00000171881 | ENSDART00000171881.2 | pepd | peptidase D [Source:ZFIN;Acc:ZDB-GENE-030131-9444] | endocrine pancreas | decreased distribution | abnormal | ZDB-PUB-160311-1 |
| OG0007365 | ENSDARG00000102249 | ENSDARG00000102249.2 | ENSDART00000171881 | ENSDART00000171881.2 | pepd | peptidase D [Source:ZFIN;Acc:ZDB-GENE-030131-9444] | endocrine pancreas | decreased size | abnormal | ZDB-PUB-160311-1 |
| OG0007365 | ENSDARG00000102249 | ENSDARG00000102249.2 | ENSDART00000171881 | ENSDART00000171881.2 | pepd | peptidase D [Source:ZFIN;Acc:ZDB-GENE-030131-9444] | endocrine pancreas development | disrupted | abnormal | ZDB-PUB-160311-1 |
| OG0007365 | ENSDARG00000102249 | ENSDARG00000102249.2 | ENSDART00000171881 | ENSDART00000171881.2 | pepd | peptidase D [Source:ZFIN;Acc:ZDB-GENE-030131-9444] | enteroendocrine cell differentiation | disrupted | abnormal | ZDB-PUB-160311-1 |
| OG0007365 | ENSDARG00000102249 | ENSDARG00000102249.2 | ENSDART00000171881 | ENSDART00000171881.2 | pepd | peptidase D [Source:ZFIN;Acc:ZDB-GENE-030131-9444] | pancreatic B cell | decreased amount | abnormal | ZDB-PUB-160311-1 |
| OG0007365 | ENSDARG00000102249 | ENSDARG00000102249.2 | ENSDART00000171881 | ENSDART00000171881.2 | pepd | peptidase D [Source:ZFIN;Acc:ZDB-GENE-030131-9444] | pancreatic B cell | decreased distribution | abnormal | ZDB-PUB-160311-1 |
| OG0007365 | ENSDARG00000102249 | ENSDARG00000102249.2 | ENSDART00000171881 | ENSDART00000171881.2 | pepd | peptidase D [Source:ZFIN;Acc:ZDB-GENE-030131-9444] | pancreatic B cell | decreased area | abnormal | ZDB-PUB-160311-1 |
| OG0007365 | ENSDARG00000102249 | ENSDARG00000102249.2 | ENSDART00000171881 | ENSDART00000171881.2 | pepd | peptidase D [Source:ZFIN;Acc:ZDB-GENE-030131-9444] | pancreatic B cell | decreased amount | abnormal | ZDB-PUB-160311-1 |
| OG0008574 | ENSDARG00000059982 | ENSDARG00000059982.7 | ENSDART00000135072 | ENSDART00000135072.3 | poc5 | POC5 centriolar protein homolog (Chlamydomonas) [Source:ZFIN;Acc:ZDB-GENE-060526-135] | anterior/posterior axis specification | disrupted | abnormal | ZDB-PUB-150203-2 |
| OG0008574 | ENSDARG00000059982 | ENSDARG00000059982.7 | ENSDART00000135072 | ENSDART00000135072.3 | poc5 | POC5 centriolar protein homolog (Chlamydomonas) [Source:ZFIN;Acc:ZDB-GENE-060526-135] | anterior/posterior axis specification | disrupted | abnormal | ZDB-PUB-150203-2 |
| OG0008574 | ENSDARG00000059982 | ENSDARG00000059982.7 | ENSDART00000135072 | ENSDART00000135072.3 | poc5 | POC5 centriolar protein homolog (Chlamydomonas) [Source:ZFIN;Acc:ZDB-GENE-060526-135] | eye development | disrupted | abnormal | ZDB-PUB-171223-8 |
| OG0008574 | ENSDARG00000059982 | ENSDARG00000059982.7 | ENSDART00000135072 | ENSDART00000135072.3 | poc5 | POC5 centriolar protein homolog (Chlamydomonas) [Source:ZFIN;Acc:ZDB-GENE-060526-135] | eye photoreceptor cell | decreased length | abnormal | ZDB-PUB-171223-8 |
| OG0008574 | ENSDARG00000059982 | ENSDARG00000059982.7 | ENSDART00000135072 | ENSDART00000135072.3 | poc5 | POC5 centriolar protein homolog (Chlamydomonas) [Source:ZFIN;Acc:ZDB-GENE-060526-135] | eye photoreceptor cell | decreased length | abnormal | ZDB-PUB-171223-8 |
| OG0008574 | ENSDARG00000059982 | ENSDARG00000059982.7 | ENSDART00000135072 | ENSDART00000135072.3 | poc5 | POC5 centriolar protein homolog (Chlamydomonas) [Source:ZFIN;Acc:ZDB-GENE-060526-135] | eye photoreceptor cell | decreased length | abnormal | ZDB-PUB-171223-8 |
| OG0008574 | ENSDARG00000059982 | ENSDARG00000059982.7 | ENSDART00000135072 | ENSDART00000135072.3 | poc5 | POC5 centriolar protein homolog (Chlamydomonas) [Source:ZFIN;Acc:ZDB-GENE-060526-135] | pericardium | edematous | abnormal | ZDB-PUB-171223-8 |
| OG0008574 | ENSDARG00000059982 | ENSDARG00000059982.7 | ENSDART00000135072 | ENSDART00000135072.3 | poc5 | POC5 centriolar protein homolog (Chlamydomonas) [Source:ZFIN;Acc:ZDB-GENE-060526-135] | post-vent region | curved | abnormal | ZDB-PUB-150203-2 |
| OG0008574 | ENSDARG00000059982 | ENSDARG00000059982.7 | ENSDART00000135072 | ENSDART00000135072.3 | poc5 | POC5 centriolar protein homolog (Chlamydomonas) [Source:ZFIN;Acc:ZDB-GENE-060526-135] | post-vent region | curved | abnormal | ZDB-PUB-150203-2 |
| OG0008574 | ENSDARG00000059982 | ENSDARG00000059982.7 | ENSDART00000135072 | ENSDART00000135072.3 | poc5 | POC5 centriolar protein homolog (Chlamydomonas) [Source:ZFIN;Acc:ZDB-GENE-060526-135] | post-vent region | curved | abnormal | ZDB-PUB-171223-8 |
| OG0008574 | ENSDARG00000059982 | ENSDARG00000059982.7 | ENSDART00000135072 | ENSDART00000135072.3 | poc5 | POC5 centriolar protein homolog (Chlamydomonas) [Source:ZFIN;Acc:ZDB-GENE-060526-135] | visual behavior | process quality | abnormal | ZDB-PUB-171223-8 |
| OG0008574 | ENSDARG00000059982 | ENSDARG00000059982.7 | ENSDART00000135072 | ENSDART00000135072.3 | poc5 | POC5 centriolar protein homolog (Chlamydomonas) [Source:ZFIN;Acc:ZDB-GENE-060526-135] | visual behavior | process quality | abnormal | ZDB-PUB-171223-8 |
| OG0008574 | ENSDARG00000059982 | ENSDARG00000059982.7 | ENSDART00000135072 | ENSDART00000135072.3 | poc5 | POC5 centriolar protein homolog (Chlamydomonas) [Source:ZFIN;Acc:ZDB-GENE-060526-135] | whole organism | dead | abnormal | ZDB-PUB-150203-2 |
| OG0002545 | ENSDARG00000030530 | ENSDARG00000030530.7 | ENSDART00000048890 | ENSDART00000048890.7 | slc22a2 | solute carrier family 22 member 2 [Source:ZFIN;Acc:ZDB-GENE-040426-2167] | atrium | inverted | abnormal | ZDB-PUB-190511-6 |
| OG0002545 | ENSDARG00000030530 | ENSDARG00000030530.7 | ENSDART00000048890 | ENSDART00000048890.7 | slc22a2 | solute carrier family 22 member 2 [Source:ZFIN;Acc:ZDB-GENE-040426-2167] | cardiac ventricle | inverted | abnormal | ZDB-PUB-190511-6 |
| OG0002545 | ENSDARG00000030530 | ENSDARG00000030530.7 | ENSDART00000048890 | ENSDART00000048890.7 | slc22a2 | solute carrier family 22 member 2 [Source:ZFIN;Acc:ZDB-GENE-040426-2167] | determination of heart left/right asymmetry | disrupted | abnormal | ZDB-PUB-190511-6 |
| OG0002545 | ENSDARG00000030530 | ENSDARG00000030530.7 | ENSDART00000048890 | ENSDART00000048890.7 | slc22a2 | solute carrier family 22 member 2 [Source:ZFIN;Acc:ZDB-GENE-040426-2167] | determination of heart left/right asymmetry | disrupted | abnormal | ZDB-PUB-190511-6 |
| OG0002545 | ENSDARG00000030530 | ENSDARG00000030530.7 | ENSDART00000048890 | ENSDART00000048890.7 | slc22a2 | solute carrier family 22 member 2 [Source:ZFIN;Acc:ZDB-GENE-040426-2167] | heart | morphology | abnormal | ZDB-PUB-190511-6 |
| OG0002545 | ENSDARG00000030530 | ENSDARG00000030530.7 | ENSDART00000048890 | ENSDART00000048890.7 | slc22a2 | solute carrier family 22 member 2 [Source:ZFIN;Acc:ZDB-GENE-040426-2167] | heart | morphology | abnormal | ZDB-PUB-190511-6 |
| OG0002545 | ENSDARG00000030530 | ENSDARG00000030530.7 | ENSDART00000048890 | ENSDART00000048890.7 | slc22a2 | solute carrier family 22 member 2 [Source:ZFIN;Acc:ZDB-GENE-040426-2167] | heart | edematous | abnormal | ZDB-PUB-190511-6 |
| OG0002545 | ENSDARG00000030530 | ENSDARG00000030530.7 | ENSDART00000048890 | ENSDART00000048890.7 | slc22a2 | solute carrier family 22 member 2 [Source:ZFIN;Acc:ZDB-GENE-040426-2167] | trunk vasculature | malformed | abnormal | ZDB-PUB-190511-6 |
| OG0000233 | ENSDARG00000101021 | ENSDARG00000101021.2 | ENSDART00000160391 | ENSDART00000160391.2 | slc22a5 | solute carrier family 22 member 5 [Source:ZFIN;Acc:ZDB-GENE-091012-1] | heme biosynthetic process | disrupted | abnormal | ZDB-PUB-090807-19 |
| OG0000233 | ENSDARG00000101021 | ENSDARG00000101021.2 | ENSDART00000160391 | ENSDART00000160391.2 | slc22a5 | solute carrier family 22 member 5 [Source:ZFIN;Acc:ZDB-GENE-091012-1] | nucleate erythrocyte | composition | abnormal | ZDB-PUB-090807-19 |
| OG0000233 | ENSDARG00000101021 | ENSDARG00000101021.2 | ENSDART00000160391 | ENSDART00000160391.2 | slc22a5 | solute carrier family 22 member 5 [Source:ZFIN;Acc:ZDB-GENE-091012-1] | nucleate erythrocyte | decreased amount | abnormal | ZDB-PUB-090807-19 |
| OG0001120 | ENSDARG00000030743 | ENSDARG00000030743.9 | ENSDART00000134573 | ENSDART00000134573.2 | sptlc3 | serine palmitoyltransferase, long chain base subunit 3 [Source:ZFIN;Acc:ZDB-GENE-041210-281] | motor neuron | morphology | abnormal | ZDB-PUB-150811-4 |
| OG0001120 | ENSDARG00000030743 | ENSDARG00000030743.9 | ENSDART00000134573 | ENSDART00000134573.2 | sptlc3 | serine palmitoyltransferase, long chain base subunit 3 [Source:ZFIN;Acc:ZDB-GENE-041210-281] | motor neuron | process quality | abnormal | ZDB-PUB-150811-4 |
| OG0013979 | ENSDARG00000035633 | ENSDARG00000035633.9 | ENSDART00000051669 | ENSDART00000051669.8 | tctn2 | tectonic family member 2 [Source:ZFIN;Acc:ZDB-GENE-030131-751] | determination of heart left/right asymmetry | disrupted | abnormal | ZDB-PUB-180531-6 |
| OG0013979 | ENSDARG00000035633 | ENSDARG00000035633.9 | ENSDART00000051669 | ENSDART00000051669.8 | tctn2 | tectonic family member 2 [Source:ZFIN;Acc:ZDB-GENE-030131-751] | heart looping | disrupted | abnormal | ZDB-PUB-180531-6 |
| OG0013979 | ENSDARG00000035633 | ENSDARG00000035633.9 | ENSDART00000051669 | ENSDART00000051669.8 | tctn2 | tectonic family member 2 [Source:ZFIN;Acc:ZDB-GENE-030131-751] | heart primordium | mislocalised | abnormal | ZDB-PUB-180531-6 |
| OG0013979 | ENSDARG00000035633 | ENSDARG00000035633.9 | ENSDART00000051669 | ENSDART00000051669.8 | tctn2 | tectonic family member 2 [Source:ZFIN;Acc:ZDB-GENE-030131-751] | lateral plate mesoderm | mislocalised | abnormal | ZDB-PUB-180531-6 |
| OG0001257 | ENSDARG00000037559 | ENSDARG00000037559.7 | ENSDART00000133131 | ENSDART00000133131.2 | uba1 | ubiquitin-like modifier activating enzyme 1 [Source:ZFIN;Acc:ZDB-GENE-040426-2009] | motor neuron | process quality | abnormal | ZDB-PUB-140513-428 |
| OG0001257 | ENSDARG00000037559 | ENSDARG00000037559.7 | ENSDART00000133131 | ENSDART00000133131.2 | uba1 | ubiquitin-like modifier activating enzyme 1 [Source:ZFIN;Acc:ZDB-GENE-040426-2009] | motor neuron | branchiness | abnormal | ZDB-PUB-140513-428 |
| OG0001257 | ENSDARG00000037559 | ENSDARG00000037559.7 | ENSDART00000133131 | ENSDART00000133131.2 | uba1 | ubiquitin-like modifier activating enzyme 1 [Source:ZFIN;Acc:ZDB-GENE-040426-2009] | neutrophil | decreased amount | abnormal | ZDB-PUB-201028-8 |
| OG0001257 | ENSDARG00000037559 | ENSDARG00000037559.7 | ENSDART00000133131 | ENSDART00000133131.2 | uba1 | ubiquitin-like modifier activating enzyme 1 [Source:ZFIN;Acc:ZDB-GENE-040426-2009] | neutrophil | decreased amount | abnormal | ZDB-PUB-201028-8 |
| OG0001257 | ENSDARG00000037559 | ENSDARG00000037559.7 | ENSDART00000133131 | ENSDART00000133131.2 | uba1 | ubiquitin-like modifier activating enzyme 1 [Source:ZFIN;Acc:ZDB-GENE-040426-2009] | neutrophil | decreased amount | abnormal | ZDB-PUB-201028-8 |
| OG0001257 | ENSDARG00000037559 | ENSDARG00000037559.7 | ENSDART00000133131 | ENSDART00000133131.2 | uba1 | ubiquitin-like modifier activating enzyme 1 [Source:ZFIN;Acc:ZDB-GENE-040426-2009] | neutrophil | decreased amount | abnormal | ZDB-PUB-201028-8 |
| OG0001257 | ENSDARG00000037559 | ENSDARG00000037559.7 | ENSDART00000133131 | ENSDART00000133131.2 | uba1 | ubiquitin-like modifier activating enzyme 1 [Source:ZFIN;Acc:ZDB-GENE-040426-2009] | neutrophil | decreased amount | abnormal | ZDB-PUB-201028-8 |
| OG0001257 | ENSDARG00000037559 | ENSDARG00000037559.7 | ENSDART00000133131 | ENSDART00000133131.2 | uba1 | ubiquitin-like modifier activating enzyme 1 [Source:ZFIN;Acc:ZDB-GENE-040426-2009] | whole organism | increased amount | abnormal | ZDB-PUB-201028-8 |
| OG0001257 | ENSDARG00000037559 | ENSDARG00000037559.7 | ENSDART00000133131 | ENSDART00000133131.2 | uba1 | ubiquitin-like modifier activating enzyme 1 [Source:ZFIN;Acc:ZDB-GENE-040426-2009] | whole organism | increased amount | abnormal | ZDB-PUB-201028-8 |
| OG0001257 | ENSDARG00000037559 | ENSDARG00000037559.7 | ENSDART00000133131 | ENSDART00000133131.2 | uba1 | ubiquitin-like modifier activating enzyme 1 [Source:ZFIN;Acc:ZDB-GENE-040426-2009] | whole organism | increased amount | abnormal | ZDB-PUB-201028-8 |
| OG0001257 | ENSDARG00000037559 | ENSDARG00000037559.7 | ENSDART00000133131 | ENSDART00000133131.2 | uba1 | ubiquitin-like modifier activating enzyme 1 [Source:ZFIN;Acc:ZDB-GENE-040426-2009] | whole organism | increased amount | abnormal | ZDB-PUB-201028-8 |
| OG0001257 | ENSDARG00000037559 | ENSDARG00000037559.7 | ENSDART00000133131 | ENSDART00000133131.2 | uba1 | ubiquitin-like modifier activating enzyme 1 [Source:ZFIN;Acc:ZDB-GENE-040426-2009] | whole organism | increased amount | abnormal | ZDB-PUB-201028-8 |
| OG0001257 | ENSDARG00000037559 | ENSDARG00000037559.7 | ENSDART00000133131 | ENSDART00000133131.2 | uba1 | ubiquitin-like modifier activating enzyme 1 [Source:ZFIN;Acc:ZDB-GENE-040426-2009] | whole organism | increased amount | abnormal | ZDB-PUB-201028-8 |
| OG0001257 | ENSDARG00000037559 | ENSDARG00000037559.7 | ENSDART00000133131 | ENSDART00000133131.2 | uba1 | ubiquitin-like modifier activating enzyme 1 [Source:ZFIN;Acc:ZDB-GENE-040426-2009] | whole organism | decreased life span | abnormal | ZDB-PUB-201028-8 |
| OG0001257 | ENSDARG00000037559 | ENSDARG00000037559.7 | ENSDART00000133131 | ENSDART00000133131.2 | uba1 | ubiquitin-like modifier activating enzyme 1 [Source:ZFIN;Acc:ZDB-GENE-040426-2009] | whole organism | dead | abnormal | ZDB-PUB-201028-8 |
| OG0001257 | ENSDARG00000037559 | ENSDARG00000037559.7 | ENSDART00000133131 | ENSDART00000133131.2 | uba1 | ubiquitin-like modifier activating enzyme 1 [Source:ZFIN;Acc:ZDB-GENE-040426-2009] | whole organism | decreased life span | abnormal | ZDB-PUB-201028-8 |
| OG0001257 | ENSDARG00000037559 | ENSDARG00000037559.7 | ENSDART00000133131 | ENSDART00000133131.2 | uba1 | ubiquitin-like modifier activating enzyme 1 [Source:ZFIN;Acc:ZDB-GENE-040426-2009] | whole organism | decreased life span | abnormal | ZDB-PUB-201028-8 |
| OG0001257 | ENSDARG00000037559 | ENSDARG00000037559.7 | ENSDART00000133131 | ENSDART00000133131.2 | uba1 | ubiquitin-like modifier activating enzyme 1 [Source:ZFIN;Acc:ZDB-GENE-040426-2009] | whole organism | dead | abnormal | ZDB-PUB-201028-8 |
| OG0001257 | ENSDARG00000037559 | ENSDARG00000037559.7 | ENSDART00000133131 | ENSDART00000133131.2 | uba1 | ubiquitin-like modifier activating enzyme 1 [Source:ZFIN;Acc:ZDB-GENE-040426-2009] | whole organism | increased amount | abnormal | ZDB-PUB-201028-8 |
| OG0001257 | ENSDARG00000037559 | ENSDARG00000037559.7 | ENSDART00000133131 | ENSDART00000133131.2 | uba1 | ubiquitin-like modifier activating enzyme 1 [Source:ZFIN;Acc:ZDB-GENE-040426-2009] | whole organism | increased amount | abnormal | ZDB-PUB-201028-8 |
| OG0001257 | ENSDARG00000037559 | ENSDARG00000037559.7 | ENSDART00000133131 | ENSDART00000133131.2 | uba1 | ubiquitin-like modifier activating enzyme 1 [Source:ZFIN;Acc:ZDB-GENE-040426-2009] | whole organism | increased amount | abnormal | ZDB-PUB-201028-8 |
| OG0001257 | ENSDARG00000037559 | ENSDARG00000037559.7 | ENSDART00000133131 | ENSDART00000133131.2 | uba1 | ubiquitin-like modifier activating enzyme 1 [Source:ZFIN;Acc:ZDB-GENE-040426-2009] | whole organism | increased amount | abnormal | ZDB-PUB-201028-8 |
| OG0001257 | ENSDARG00000037559 | ENSDARG00000037559.7 | ENSDART00000133131 | ENSDART00000133131.2 | uba1 | ubiquitin-like modifier activating enzyme 1 [Source:ZFIN;Acc:ZDB-GENE-040426-2009] | whole organism | increased amount | abnormal | ZDB-PUB-201028-8 |
| OG0001257 | ENSDARG00000037559 | ENSDARG00000037559.7 | ENSDART00000133131 | ENSDART00000133131.2 | uba1 | ubiquitin-like modifier activating enzyme 1 [Source:ZFIN;Acc:ZDB-GENE-040426-2009] | whole organism | dead | abnormal | ZDB-PUB-201028-8 |
| OG0001257 | ENSDARG00000037559 | ENSDARG00000037559.7 | ENSDART00000133131 | ENSDART00000133131.2 | uba1 | ubiquitin-like modifier activating enzyme 1 [Source:ZFIN;Acc:ZDB-GENE-040426-2009] | whole organism | increased amount | abnormal | ZDB-PUB-201028-8 |
| OG0010204 | ENSDARG00000071197 | ENSDARG00000071197.5 | ENSDART00000105098 | ENSDART00000105098.5 | usp40 | ubiquitin specific peptidase 40 [Source:ZFIN;Acc:ZDB-GENE-060518-5] | pericardium | edematous | abnormal | ZDB-PUB-170204-11 |
| OG0010204 | ENSDARG00000071197 | ENSDARG00000071197.5 | ENSDART00000105098 | ENSDART00000105098.5 | usp40 | ubiquitin specific peptidase 40 [Source:ZFIN;Acc:ZDB-GENE-060518-5] | post-vent region | curved dorsal | abnormal | ZDB-PUB-170204-11 |
| OG0010204 | ENSDARG00000071197 | ENSDARG00000071197.5 | ENSDART00000105098 | ENSDART00000105098.5 | usp40 | ubiquitin specific peptidase 40 [Source:ZFIN;Acc:ZDB-GENE-060518-5] | pronephric capsular space | dilated | abnormal | ZDB-PUB-170204-11 |
| OG0010204 | ENSDARG00000071197 | ENSDARG00000071197.5 | ENSDART00000105098 | ENSDART00000105098.5 | usp40 | ubiquitin specific peptidase 40 [Source:ZFIN;Acc:ZDB-GENE-060518-5] | pronephric glomerular basement membrane | decreased functionality | abnormal | ZDB-PUB-170204-11 |
| OG0010204 | ENSDARG00000071197 | ENSDARG00000071197.5 | ENSDART00000105098 | ENSDART00000105098.5 | usp40 | ubiquitin specific peptidase 40 [Source:ZFIN;Acc:ZDB-GENE-060518-5] | pronephric glomerulus | decreased amount | abnormal | ZDB-PUB-170204-11 |
| OG0010204 | ENSDARG00000071197 | ENSDARG00000071197.5 | ENSDART00000105098 | ENSDART00000105098.5 | usp40 | ubiquitin specific peptidase 40 [Source:ZFIN;Acc:ZDB-GENE-060518-5] | pronephric glomerulus | disorganized | abnormal | ZDB-PUB-170204-11 |
| OG0010204 | ENSDARG00000071197 | ENSDARG00000071197.5 | ENSDART00000105098 | ENSDART00000105098.5 | usp40 | ubiquitin specific peptidase 40 [Source:ZFIN;Acc:ZDB-GENE-060518-5] | pronephric podocyte | decreased thickness | abnormal | ZDB-PUB-170204-11 |
| OG0010204 | ENSDARG00000071197 | ENSDARG00000071197.5 | ENSDART00000105098 | ENSDART00000105098.5 | usp40 | ubiquitin specific peptidase 40 [Source:ZFIN;Acc:ZDB-GENE-060518-5] | whole organism | decreased length | abnormal | ZDB-PUB-170204-11 |
| OG0001196 | ENSDARG00000092233 | ENSDARG00000092233.3 | ENSDART00000144969 | ENSDART00000144969.3 | vtg1 | vitellogenin 1 [Source:ZFIN;Acc:ZDB-GENE-001201-1] | female organism | absent | abnormal | ZDB-PUB-190807-7 |
| OG0001196 | ENSDARG00000092233 | ENSDARG00000092233.3 | ENSDART00000144969 | ENSDART00000144969.3 | vtg1 | vitellogenin 1 [Source:ZFIN;Acc:ZDB-GENE-001201-1] | female organism | absent | abnormal | ZDB-PUB-190807-7 |
| OG0001196 | ENSDARG00000092233 | ENSDARG00000092233.3 | ENSDART00000144969 | ENSDART00000144969.3 | vtg1 | vitellogenin 1 [Source:ZFIN;Acc:ZDB-GENE-001201-1] | female organism | increased amount | abnormal | ZDB-PUB-190807-7 |
| OG0001196 | ENSDARG00000092233 | ENSDARG00000092233.3 | ENSDART00000144969 | ENSDART00000144969.3 | vtg1 | vitellogenin 1 [Source:ZFIN;Acc:ZDB-GENE-001201-1] | female organism | decreased amount | abnormal | ZDB-PUB-190807-7 |
| OG0001196 | ENSDARG00000092233 | ENSDARG00000092233.3 | ENSDART00000144969 | ENSDART00000144969.3 | vtg1 | vitellogenin 1 [Source:ZFIN;Acc:ZDB-GENE-001201-1] | female organism | increased amount | abnormal | ZDB-PUB-190807-7 |
| OG0001196 | ENSDARG00000092233 | ENSDARG00000092233.3 | ENSDART00000144969 | ENSDART00000144969.3 | vtg1 | vitellogenin 1 [Source:ZFIN;Acc:ZDB-GENE-001201-1] | female organism | increased amount | abnormal | ZDB-PUB-190807-7 |
| OG0001196 | ENSDARG00000092233 | ENSDARG00000092233.3 | ENSDART00000144969 | ENSDART00000144969.3 | vtg1 | vitellogenin 1 [Source:ZFIN;Acc:ZDB-GENE-001201-1] | female organism | increased amount | abnormal | ZDB-PUB-190807-7 |
| OG0001196 | ENSDARG00000092233 | ENSDARG00000092233.3 | ENSDART00000144969 | ENSDART00000144969.3 | vtg1 | vitellogenin 1 [Source:ZFIN;Acc:ZDB-GENE-001201-1] | female organism | absent | abnormal | ZDB-PUB-190807-7 |
| OG0001196 | ENSDARG00000092233 | ENSDARG00000092233.3 | ENSDART00000144969 | ENSDART00000144969.3 | vtg1 | vitellogenin 1 [Source:ZFIN;Acc:ZDB-GENE-001201-1] | female organism | increased amount | abnormal | ZDB-PUB-190807-7 |
| OG0001196 | ENSDARG00000092233 | ENSDARG00000092233.3 | ENSDART00000144969 | ENSDART00000144969.3 | vtg1 | vitellogenin 1 [Source:ZFIN;Acc:ZDB-GENE-001201-1] | female organism | decreased amount | abnormal | ZDB-PUB-190807-7 |
| OG0001196 | ENSDARG00000092233 | ENSDARG00000092233.3 | ENSDART00000144969 | ENSDART00000144969.3 | vtg1 | vitellogenin 1 [Source:ZFIN;Acc:ZDB-GENE-001201-1] | female organism | absent | abnormal | ZDB-PUB-190807-7 |
| OG0001196 | ENSDARG00000092233 | ENSDARG00000092233.3 | ENSDART00000144969 | ENSDART00000144969.3 | vtg1 | vitellogenin 1 [Source:ZFIN;Acc:ZDB-GENE-001201-1] | female organism | absent | abnormal | ZDB-PUB-190807-7 |
| OG0001196 | ENSDARG00000092233 | ENSDARG00000092233.3 | ENSDART00000144969 | ENSDART00000144969.3 | vtg1 | vitellogenin 1 [Source:ZFIN;Acc:ZDB-GENE-001201-1] | female organism | absent | abnormal | ZDB-PUB-190807-7 |
| OG0001196 | ENSDARG00000092233 | ENSDARG00000092233.3 | ENSDART00000144969 | ENSDART00000144969.3 | vtg1 | vitellogenin 1 [Source:ZFIN;Acc:ZDB-GENE-001201-1] | female organism | absent | abnormal | ZDB-PUB-190807-7 |
| OG0001196 | ENSDARG00000092233 | ENSDARG00000092233.3 | ENSDART00000144969 | ENSDART00000144969.3 | vtg1 | vitellogenin 1 [Source:ZFIN;Acc:ZDB-GENE-001201-1] | female organism | absent | abnormal | ZDB-PUB-190807-7 |
| OG0001196 | ENSDARG00000092233 | ENSDARG00000092233.3 | ENSDART00000144969 | ENSDART00000144969.3 | vtg1 | vitellogenin 1 [Source:ZFIN;Acc:ZDB-GENE-001201-1] | female organism | absent | abnormal | ZDB-PUB-190807-7 |
| OG0001196 | ENSDARG00000113631 | ENSDARG00000113631.1 | ENSDART00000190185 | ENSDART00000190185.1 | vtg1 | vitellogenin 1 [Source:ZFIN;Acc:ZDB-GENE-001201-1] | female organism | absent | abnormal | ZDB-PUB-190807-7 |
| OG0001196 | ENSDARG00000113631 | ENSDARG00000113631.1 | ENSDART00000190185 | ENSDART00000190185.1 | vtg1 | vitellogenin 1 [Source:ZFIN;Acc:ZDB-GENE-001201-1] | female organism | absent | abnormal | ZDB-PUB-190807-7 |
| OG0001196 | ENSDARG00000113631 | ENSDARG00000113631.1 | ENSDART00000190185 | ENSDART00000190185.1 | vtg1 | vitellogenin 1 [Source:ZFIN;Acc:ZDB-GENE-001201-1] | female organism | increased amount | abnormal | ZDB-PUB-190807-7 |
| OG0001196 | ENSDARG00000113631 | ENSDARG00000113631.1 | ENSDART00000190185 | ENSDART00000190185.1 | vtg1 | vitellogenin 1 [Source:ZFIN;Acc:ZDB-GENE-001201-1] | female organism | decreased amount | abnormal | ZDB-PUB-190807-7 |
| OG0001196 | ENSDARG00000113631 | ENSDARG00000113631.1 | ENSDART00000190185 | ENSDART00000190185.1 | vtg1 | vitellogenin 1 [Source:ZFIN;Acc:ZDB-GENE-001201-1] | female organism | increased amount | abnormal | ZDB-PUB-190807-7 |
| OG0001196 | ENSDARG00000113631 | ENSDARG00000113631.1 | ENSDART00000190185 | ENSDART00000190185.1 | vtg1 | vitellogenin 1 [Source:ZFIN;Acc:ZDB-GENE-001201-1] | female organism | increased amount | abnormal | ZDB-PUB-190807-7 |
| OG0001196 | ENSDARG00000113631 | ENSDARG00000113631.1 | ENSDART00000190185 | ENSDART00000190185.1 | vtg1 | vitellogenin 1 [Source:ZFIN;Acc:ZDB-GENE-001201-1] | female organism | increased amount | abnormal | ZDB-PUB-190807-7 |
| OG0001196 | ENSDARG00000113631 | ENSDARG00000113631.1 | ENSDART00000190185 | ENSDART00000190185.1 | vtg1 | vitellogenin 1 [Source:ZFIN;Acc:ZDB-GENE-001201-1] | female organism | absent | abnormal | ZDB-PUB-190807-7 |
| OG0001196 | ENSDARG00000113631 | ENSDARG00000113631.1 | ENSDART00000190185 | ENSDART00000190185.1 | vtg1 | vitellogenin 1 [Source:ZFIN;Acc:ZDB-GENE-001201-1] | female organism | increased amount | abnormal | ZDB-PUB-190807-7 |
| OG0001196 | ENSDARG00000113631 | ENSDARG00000113631.1 | ENSDART00000190185 | ENSDART00000190185.1 | vtg1 | vitellogenin 1 [Source:ZFIN;Acc:ZDB-GENE-001201-1] | female organism | decreased amount | abnormal | ZDB-PUB-190807-7 |
| OG0001196 | ENSDARG00000113631 | ENSDARG00000113631.1 | ENSDART00000190185 | ENSDART00000190185.1 | vtg1 | vitellogenin 1 [Source:ZFIN;Acc:ZDB-GENE-001201-1] | female organism | absent | abnormal | ZDB-PUB-190807-7 |
| OG0001196 | ENSDARG00000113631 | ENSDARG00000113631.1 | ENSDART00000190185 | ENSDART00000190185.1 | vtg1 | vitellogenin 1 [Source:ZFIN;Acc:ZDB-GENE-001201-1] | female organism | absent | abnormal | ZDB-PUB-190807-7 |
| OG0001196 | ENSDARG00000113631 | ENSDARG00000113631.1 | ENSDART00000190185 | ENSDART00000190185.1 | vtg1 | vitellogenin 1 [Source:ZFIN;Acc:ZDB-GENE-001201-1] | female organism | absent | abnormal | ZDB-PUB-190807-7 |
| OG0001196 | ENSDARG00000113631 | ENSDARG00000113631.1 | ENSDART00000190185 | ENSDART00000190185.1 | vtg1 | vitellogenin 1 [Source:ZFIN;Acc:ZDB-GENE-001201-1] | female organism | absent | abnormal | ZDB-PUB-190807-7 |
| OG0001196 | ENSDARG00000113631 | ENSDARG00000113631.1 | ENSDART00000190185 | ENSDART00000190185.1 | vtg1 | vitellogenin 1 [Source:ZFIN;Acc:ZDB-GENE-001201-1] | female organism | absent | abnormal | ZDB-PUB-190807-7 |
| OG0001196 | ENSDARG00000113631 | ENSDARG00000113631.1 | ENSDART00000190185 | ENSDART00000190185.1 | vtg1 | vitellogenin 1 [Source:ZFIN;Acc:ZDB-GENE-001201-1] | female organism | absent | abnormal | ZDB-PUB-190807-7 |
| OG0001196 | ENSDARG00000092233 | ENSDARG00000092233.3 | ENSDART00000144969 | ENSDART00000144969.3 | vtg1 | vitellogenin 1 [Source:ZFIN;Acc:ZDB-GENE-001201-1] | fertilized egg | decreased rate of occurrence | abnormal | ZDB-PUB-190807-7 |
| OG0001196 | ENSDARG00000092233 | ENSDARG00000092233.3 | ENSDART00000144969 | ENSDART00000144969.3 | vtg1 | vitellogenin 1 [Source:ZFIN;Acc:ZDB-GENE-001201-1] | fertilized egg | decreased rate of occurrence | abnormal | ZDB-PUB-190807-7 |
| OG0001196 | ENSDARG00000092233 | ENSDARG00000092233.3 | ENSDART00000144969 | ENSDART00000144969.3 | vtg1 | vitellogenin 1 [Source:ZFIN;Acc:ZDB-GENE-001201-1] | fertilized egg | decreased rate of occurrence | abnormal | ZDB-PUB-190807-7 |
| OG0001196 | ENSDARG00000092233 | ENSDARG00000092233.3 | ENSDART00000144969 | ENSDART00000144969.3 | vtg1 | vitellogenin 1 [Source:ZFIN;Acc:ZDB-GENE-001201-1] | fertilized egg | decreased rate of occurrence | abnormal | ZDB-PUB-190807-7 |
| OG0001196 | ENSDARG00000113631 | ENSDARG00000113631.1 | ENSDART00000190185 | ENSDART00000190185.1 | vtg1 | vitellogenin 1 [Source:ZFIN;Acc:ZDB-GENE-001201-1] | fertilized egg | decreased rate of occurrence | abnormal | ZDB-PUB-190807-7 |
| OG0001196 | ENSDARG00000113631 | ENSDARG00000113631.1 | ENSDART00000190185 | ENSDART00000190185.1 | vtg1 | vitellogenin 1 [Source:ZFIN;Acc:ZDB-GENE-001201-1] | fertilized egg | decreased rate of occurrence | abnormal | ZDB-PUB-190807-7 |
| OG0001196 | ENSDARG00000113631 | ENSDARG00000113631.1 | ENSDART00000190185 | ENSDART00000190185.1 | vtg1 | vitellogenin 1 [Source:ZFIN;Acc:ZDB-GENE-001201-1] | fertilized egg | decreased rate of occurrence | abnormal | ZDB-PUB-190807-7 |
| OG0001196 | ENSDARG00000113631 | ENSDARG00000113631.1 | ENSDART00000190185 | ENSDART00000190185.1 | vtg1 | vitellogenin 1 [Source:ZFIN;Acc:ZDB-GENE-001201-1] | fertilized egg | decreased rate of occurrence | abnormal | ZDB-PUB-190807-7 |
| OG0001196 | ENSDARG00000092233 | ENSDARG00000092233.3 | ENSDART00000144969 | ENSDART00000144969.3 | vtg1 | vitellogenin 1 [Source:ZFIN;Acc:ZDB-GENE-001201-1] | pericardium | edematous | abnormal | ZDB-PUB-190807-7 |
| OG0001196 | ENSDARG00000092233 | ENSDARG00000092233.3 | ENSDART00000144969 | ENSDART00000144969.3 | vtg1 | vitellogenin 1 [Source:ZFIN;Acc:ZDB-GENE-001201-1] | pericardium | edematous | abnormal | ZDB-PUB-190807-7 |
| OG0001196 | ENSDARG00000113631 | ENSDARG00000113631.1 | ENSDART00000190185 | ENSDART00000190185.1 | vtg1 | vitellogenin 1 [Source:ZFIN;Acc:ZDB-GENE-001201-1] | pericardium | edematous | abnormal | ZDB-PUB-190807-7 |
| OG0001196 | ENSDARG00000113631 | ENSDARG00000113631.1 | ENSDART00000190185 | ENSDART00000190185.1 | vtg1 | vitellogenin 1 [Source:ZFIN;Acc:ZDB-GENE-001201-1] | pericardium | edematous | abnormal | ZDB-PUB-190807-7 |
| OG0001196 | ENSDARG00000092233 | ENSDARG00000092233.3 | ENSDART00000144969 | ENSDART00000144969.3 | vtg1 | vitellogenin 1 [Source:ZFIN;Acc:ZDB-GENE-001201-1] | post-vent region | curved | abnormal | ZDB-PUB-190807-7 |
| OG0001196 | ENSDARG00000092233 | ENSDARG00000092233.3 | ENSDART00000144969 | ENSDART00000144969.3 | vtg1 | vitellogenin 1 [Source:ZFIN;Acc:ZDB-GENE-001201-1] | post-vent region | bent | abnormal | ZDB-PUB-190807-7 |
| OG0001196 | ENSDARG00000092233 | ENSDARG00000092233.3 | ENSDART00000144969 | ENSDART00000144969.3 | vtg1 | vitellogenin 1 [Source:ZFIN;Acc:ZDB-GENE-001201-1] | post-vent region | curved | abnormal | ZDB-PUB-190807-7 |
| OG0001196 | ENSDARG00000092233 | ENSDARG00000092233.3 | ENSDART00000144969 | ENSDART00000144969.3 | vtg1 | vitellogenin 1 [Source:ZFIN;Acc:ZDB-GENE-001201-1] | post-vent region | bent | abnormal | ZDB-PUB-190807-7 |
| OG0001196 | ENSDARG00000113631 | ENSDARG00000113631.1 | ENSDART00000190185 | ENSDART00000190185.1 | vtg1 | vitellogenin 1 [Source:ZFIN;Acc:ZDB-GENE-001201-1] | post-vent region | curved | abnormal | ZDB-PUB-190807-7 |
| OG0001196 | ENSDARG00000113631 | ENSDARG00000113631.1 | ENSDART00000190185 | ENSDART00000190185.1 | vtg1 | vitellogenin 1 [Source:ZFIN;Acc:ZDB-GENE-001201-1] | post-vent region | bent | abnormal | ZDB-PUB-190807-7 |
| OG0001196 | ENSDARG00000113631 | ENSDARG00000113631.1 | ENSDART00000190185 | ENSDART00000190185.1 | vtg1 | vitellogenin 1 [Source:ZFIN;Acc:ZDB-GENE-001201-1] | post-vent region | curved | abnormal | ZDB-PUB-190807-7 |
| OG0001196 | ENSDARG00000113631 | ENSDARG00000113631.1 | ENSDART00000190185 | ENSDART00000190185.1 | vtg1 | vitellogenin 1 [Source:ZFIN;Acc:ZDB-GENE-001201-1] | post-vent region | bent | abnormal | ZDB-PUB-190807-7 |
| OG0001196 | ENSDARG00000092233 | ENSDARG00000092233.3 | ENSDART00000144969 | ENSDART00000144969.3 | vtg1 | vitellogenin 1 [Source:ZFIN;Acc:ZDB-GENE-001201-1] | whole organism | dead | abnormal | ZDB-PUB-190807-7 |
| OG0001196 | ENSDARG00000092233 | ENSDARG00000092233.3 | ENSDART00000144969 | ENSDART00000144969.3 | vtg1 | vitellogenin 1 [Source:ZFIN;Acc:ZDB-GENE-001201-1] | whole organism | decreased life span | abnormal | ZDB-PUB-190807-7 |
| OG0001196 | ENSDARG00000113631 | ENSDARG00000113631.1 | ENSDART00000190185 | ENSDART00000190185.1 | vtg1 | vitellogenin 1 [Source:ZFIN;Acc:ZDB-GENE-001201-1] | whole organism | dead | abnormal | ZDB-PUB-190807-7 |
| OG0001196 | ENSDARG00000113631 | ENSDARG00000113631.1 | ENSDART00000190185 | ENSDART00000190185.1 | vtg1 | vitellogenin 1 [Source:ZFIN;Acc:ZDB-GENE-001201-1] | whole organism | decreased life span | abnormal | ZDB-PUB-190807-7 |
| OG0001196 | ENSDARG00000092233 | ENSDARG00000092233.3 | ENSDART00000144969 | ENSDART00000144969.3 | vtg1 | vitellogenin 1 [Source:ZFIN;Acc:ZDB-GENE-001201-1] | yolk | edematous | abnormal | ZDB-PUB-190807-7 |
| OG0001196 | ENSDARG00000092233 | ENSDARG00000092233.3 | ENSDART00000144969 | ENSDART00000144969.3 | vtg1 | vitellogenin 1 [Source:ZFIN;Acc:ZDB-GENE-001201-1] | yolk | edematous | abnormal | ZDB-PUB-190807-7 |
| OG0001196 | ENSDARG00000113631 | ENSDARG00000113631.1 | ENSDART00000190185 | ENSDART00000190185.1 | vtg1 | vitellogenin 1 [Source:ZFIN;Acc:ZDB-GENE-001201-1] | yolk | edematous | abnormal | ZDB-PUB-190807-7 |
| OG0001196 | ENSDARG00000113631 | ENSDARG00000113631.1 | ENSDART00000190185 | ENSDART00000190185.1 | vtg1 | vitellogenin 1 [Source:ZFIN;Acc:ZDB-GENE-001201-1] | yolk | edematous | abnormal | ZDB-PUB-190807-7 |
Phenotype plots
The plot shows the distribution of phenotype keyword terms and the frequency of affected phenotype terms from ZFIN. Panel on the left shows the effect of genetic perturbation on the convergent genes. Panel on the right shows the number of unique affected structures that show a phenotype after genetic perturbation. The data shows that mutations in the convergent genes can affect several phenotypes and structures, with a majority of the effects showing a decrease or reduction in affected structures or processes, while a few shows an increase.
ph_dat<-pheno_conv %>% summarise(n = n(),.by = c(`Phenotype Keyword Name`)) %>% mutate(`Phenotype Keyword Name`=reorder(`Phenotype Keyword Name`,n))
g1<-ggpubr::ggbarplot(ph_dat, y = "Phenotype Keyword Name", x = "n",
x.text.angle = 90,
fill = "#708090",
color = "white",
xlab = "Frequency of keyword")+
geom_text(aes(label = n), hjust = -0.2)
read_tsv("./Datasets/DatasetS0_csv_files/phenoGeneCleanData_fish_2023.05.07.tsv")->pheno #Download from ZFIN
#ph_c<-pheno %>% filter(`Gene Symbol` %in% pheno_conv$`Gene name`)
ph_c<-pheno %>% filter(`Gene Symbol` %in% pheno_conv$`Gene name`) %>% dplyr::select(`Gene Symbol`,`Affected Structure or Process 1 superterm ID`) %>%
na.omit() %>% distinct(`Affected Structure or Process 1 superterm ID`,.keep_all = T) %>%
summarise(n = n(),.by = c(`Gene Symbol`)) %>%
mutate(type = "convergent") %>% arrange(desc(n))
make_pheno_terms_dist<-function(d){
pheno %>% filter(`Gene Symbol` == d) %>% distinct(`Affected Structure or Process 1 superterm ID`,.keep_all = T) %>%
summarise(n = n(),.by = c(`Affected Structure or Process 1 superterm Name`,`Publication ID`)) %>% mutate(Gene_symbol = d)
}
purrr::map(ph_c$`Gene Symbol`,make_pheno_terms_dist) %>% bind_rows() %>%
dplyr::select(Gene_symbol,`Affected Structure or Process 1 superterm Name`) %>%
summarise(n = n(),.by = c(Gene_symbol))->ph_c
ph_c$Gene_symbol<-factor(ph_c$Gene_symbol,levels = c(ph_c %>% arrange((n)) %>% pull(Gene_symbol)))
g2<-ggpubr::ggbarplot(ph_c,y = "Gene_symbol",
x = "n",
fill = "#708090",
color = "white",
x.text.angle = 0,
xlab = "Frequency of Affected structure superterm",
ylab = "Genes")+
geom_text(aes(label = n), hjust = -0.1)
ggpubr::ggarrange(g1,g2)
The chord diagram shows that for some genes the perturbation phenotypes occur across multiple tissue systems (e.g. alcama, pax3a). The length of the grey bars correspond to the frequency values in the bar plot.
library(circlize)
pheno_terms<-read_csv("./Datasets/DatasetS0_csv_files/Pheno_terms_table_revised.csv")
pheno_terms %>% summarise(n = n(),.by = c(`Gene Symbol`,tissue_system))pheno_terms_wide<-pheno_terms %>% summarise(n = n(),.by = c(`Gene Symbol`,tissue_system)) %>%
pivot_wider(names_from = `Gene Symbol`, values_from = n)
pheno_terms_wide[is.na(pheno_terms_wide)]=0
df_matrix <- pheno_terms_wide %>%
select(-tissue_system) %>% # Remove the Gene_symbol column
as.matrix()
rownames(df_matrix)<-pheno_terms_wide$tissue_system
tissue_colors_vibrant <- c(
"Nervous" = "#FF4500", # Orange Red
"Skeletal" = "#1E90FF", # Dodger Blue
"Circulatory" = "#9400D3", # Dark Violet
"Whole organism" = "#32CD32", # Lime Green
"Digestive" = "#FF7F50", # Coral
"Embryo"= "#2611EE", # Dark Navy
"Skin" = "#FFD700", # Gold
"Excretory" = "#8B0000", # Dark Red
"Reproductive" = "#FF1493", # Deep Pink
"Cell process" = "#00FFFF", # Cyan
"Immune" = "#EE82EE" # Violet
)
chordDiagram(df_matrix,
annotationTrack = "grid",
preAllocateTracks = 1,grid.col = tissue_colors_vibrant)
# Add labels for each tissue
circos.trackPlotRegion(track.index = 1, panel.fun = function(x, y) {
tissue = CELL_META$sector.index
circos.text(CELL_META$xcenter, CELL_META$ylim[1] + .1, tissue,
facing = "clockwise", niceFacing = TRUE, adj = c(0, 0.5))
}, bg.border = NA)
Comparing the distributions
#Load all the data
tau_dat_all<-readRDS("./RDS/tau_dat_all.rds")
read_csv("./Datasets/DatasetS0_csv_files/Danio_biomart.csv")->Danio_biomart
danio_conv<-read.csv("./Datasets/DatasetS0_csv_files/Danio_rerio_convergent_genes.csv")
read_tsv("./Datasets/DatasetS0_csv_files/phenoGeneCleanData_fish_2023.05.07.tsv")->pheno
#Takes a long time
#pheno2 %>% mutate(Gene_symbol=str_extract(rem_str, paste(Danio_biomart$`Gene name`, collapse = "|")))->pheno2
#pheno2 %>% dplyr::rename("Gene Symbol"="Gene_symbol")->pheno2
#pheno2 %>% saveRDS("./RDS/pheno_with_clean_gene_symbol.rds")
readRDS("./RDS/pheno_with_clean_gene_symbol.rds")->pheno2
rbind(pheno %>% dplyr::select(c(`Gene Symbol`, `Affected Structure or Process 1 superterm ID`, `Publication ID`,`Affected Structure or Process 1 superterm Name`)),
pheno2 %>% dplyr::select(c(`Gene Symbol`, `Affected Structure or Process 1 superterm ID`, `Publication ID`,`Affected Structure or Process 1 superterm Name`))) %>%
group_by(`Gene Symbol`) %>% na.omit() %>%
mutate(uniq_affected_terms=length(unique(`Affected Structure or Process 1 superterm ID`)),
uniq_pubs=length(unique(`Publication ID`))) %>% distinct(`Gene Symbol`, .keep_all = T)->pheno_summary
inner_join(
Danio_biomart %>% dplyr::select(`Gene stable ID`,`Gene name`,`Gene description`) %>% dplyr::rename("Gene.ID"=`Gene stable ID`,"Gene Symbol"=`Gene name`),
pheno_summary,by = "Gene Symbol") %>% na.omit() %>% distinct(Gene.ID,.keep_all = T)->pheno_summary
#inner_join(pheno_summary,
#estimated_ts_conv_Danio_tau_conv_all %>% dplyr::select(Gene.ID, conv), by = "Gene.ID")->pheno_summary
inner_join(pheno_summary,
orth_list %>% dplyr::select(Orthogroup,orths) %>% dplyr::rename("Gene.ID"=orths),
by="Gene.ID") %>%
dplyr::select(Gene.ID,Orthogroup,everything())->pheno_summary
#Summarise the average number of affected phenotypic terms by Orthogroup
#because each orthogroup has different genes with reporting of phenotypes
#Look at the above pheno_summary data and compare with the Danio_biomart df.
rbind(
pheno_summary %>% summarise(n=mean(uniq_affected_terms),.by = c("Orthogroup")) %>% filter(Orthogroup %in% non_spuroius_conv$Orthogroup) %>% mutate(state="Convergent"),
pheno_summary %>% summarise(n=mean(uniq_affected_terms),.by = c("Orthogroup")) %>% filter(!Orthogroup %in% non_spuroius_conv$Orthogroup) %>% mutate(state="Non-convergent"))->pheno_test_dat
ksboot(x=pheno_test_dat %>% filter(state=="Convergent") %>% pull(n),
y=pheno_test_dat %>% filter(!state=="Convergent") %>% pull(n),alternative = "greater",nboots = 5000)->ks_test_res
ks_test_res## $ksboot.pvalue
## [1] 0.0354
##
## $nboots
## [1] 5000q1<-quantile(log2(pheno_test_dat$n),.33)
q2<-quantile(log2(pheno_test_dat$n),.66)
pheno_test_dat %>%
ggplot(aes(x=log2(n), fill=state))+
geom_density(alpha=0.6)+
scale_fill_manual(values = c("#EA5B15","#1AAEC0"))+
theme_bw()+
geom_vline(xintercept = q1, linetype="dashed")+
geom_vline(xintercept = q2, linetype="dashed")+
xlab("Number of unique phenotypic terms (log2)")+
labs(title = "Distribution of unique phenotypic terms\nduring genetic perpurbation.",
subtitle = paste0("One-sided KS (greater) p-value: ",ks_test_res$ksboot.pvalue))->dist_mutant_phenotypes
pheno_test_dat %>%
ggplot(aes(x=log2(n), color = state))+
stat_ecdf()+
scale_color_manual(values = c("#EA5B15","#1AAEC0"))+
theme_bw()+
xlab("Number of unique phenotypic terms (log2)")+
labs(title = "Cumulative probability distrubutions.")->ecdf_mutant_phenotypes
ggarrange(dist_mutant_phenotypes,ecdf_mutant_phenotypes, ncol = 1, common.legend = T)