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  Home > SCOP hierarchy > Domain combination - _gap_,54928

Domain combinations for _gap_,54928 superfamilies in groups of genomes

The selected domain combination is the occurrence of the following superfamily domains in N- to C-Terminal order:

54928 - RNA-binding domain, RBD

Phylogenetic distribution

Other domain architectures with a similar genomic distribution.
See the phylogenetic distribution for this domain architecture.

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Domain combinations in groups of genomes

Click on a group of genomes below to view all sequences containing the chosen domain combination in that group of genomes.

Groups of genomes may be slower than individual genomes.

Jump to [ Top of page · Domain combinations in groups of genomes ]

Domain combinations in individual genomes

Click on a genome below to view all sequences containing the chosen domain combination (listed below) in that genome.

Complete genomes
Genome     Number
Homo_sapiens_76_38   (Human)   100
Pan_troglodytes_76_2.1.4   (Chimpanzee)   6
Gorilla_gorilla_76_3.1   (Western gorilla)   10
Pongo_abelii_76_2   (Sumatran orangutan)   8
Nomascus_leucogenys_76_1.0   (Northern white-cheeked gibbon)   14
Papio_anubis_76   (Olive baboon)   10
Macaca_mulatta_76_1   (Rhesus monkey)   21
Callithrix_jacchus_76_3.2.1   (White-tufted-ear marmoset)   27
Otolemur_garnettii_76_3   (Small-eared galago)   12
Microcebus_murinus_76_1   (Gray mouse lemur)   9
Rattus_norvegicus_76_5.0   (Norway rat)   14
Mus_musculus_76_38   (House mouse)   49
Dipodomys_ordii_76_1   (Ord's kangaroo rat)   7
Ictidomys_tridecemlineatus_76_2   (Thirteen-lined ground squirrel)   10
Heterocephalus_glaber_v1.7-2   (Naked mole-rat)   16
Cavia_porcellus_76_3   (Domestic guinea pig)   7
Oryctolagus_cuniculus_76_2   (Rabbit)   13
Ochotona_princeps_76   (American pika)   9
Tupaia_belangeri_76   (Northern tree shrew)   10
Sus_scrofa_76_10.2   (Pig)   20
Bos_taurus_76_3.1   (Cattle)   13
Ovis_aries_76_3.1   (Sheep)   10
Vicugna_pacos_76_1   (Alpaca)   4
Tursiops_truncatus_76_1   (Bottlenose dolphin)   6
Mustela_putorius_furo_76_1.0   (Domestic ferret)   12
Ailuropoda_melanoleuca_76_1   (Giant panda)   10
Canis_familiaris_76_3.1   (Dog)   11
Felis_catus_76_6.2   (Domestic cat)   9
Equus_caballus_76_2   (Horse)   12
Myotis_lucifugus_76_2.0   (Little brown bat)   15
Pteropus_vampyrus_76_1   (Large flying fox)   7
Sorex_araneus_76_1   (European shrew)   7
Erinaceus_europaeus_76   (Western European hedgehog)   9
Procavia_capensis_76_1   (Cape rock hyrax)   15
Loxodonta_africana_76_3   (African savanna elephant)   15
Echinops_telfairi_76   (Small Madagascar hedgehog)   12
Dasypus_novemcinctus_76_2   (Nine-banded armadillo)   21
Choloepus_hoffmanni_76_1   (Hoffmann's two-fingered sloth)   6
Macropus_eugenii_76_1.0   (Tammar wallaby)   7
Sarcophilus_harrisii_76_7.0   (Tasmanian devil)   11
Monodelphis_domestica_76_5   (Gray short-tailed opossum)   11
Ornithorhynchus_anatinus_76_5   (Platypus)   19
Saccoglossus_kowalevskii_v3.0 27
Petromyzon_marinus_76_7.0   (Sea lamprey)   10
Meleagris_gallopavo_76_2   (Turkey)   9
Gallus_gallus_76_4   (Chicken)   6
Anas_platyrhynchos_76_1.0   (Mallard)   7
Taeniopygia_guttata_76_3.2.4   (Zebra finch)   8
Ficedula_albicollis_76_1.0   (Collared flycatcher)   6
Pelodiscus_sinensis_76_1.0   (Chinese soft-shelled turtle)   11
Anolis_carolinensis_76_2.0   (Green anole)   7
Xenopus_laevis_   (African clawed frog)   37
Xenopus_tropicalis_76_4.2   (Tropical clawed frog)   6
Latimeria_chalumnae_76_1   (Coelacanth)   15
Lepisosteus_oculatus_76   (Spotted gar)   12
Gadus_morhua_76_1   (Atlantic cod)   9
Tetraodon_nigroviridis_76_8   (Spotted green pufferfish)   11
Takifugu_rubripes_76_4   (Torafugu)   20
Gasterosteus_aculeatus_76_1   (Three-spined stickleback)   12
Oryzias_latipes_76_1   (Japanese medaka)   14
Xiphophorus_maculatus_76_4.4.2   (Southern platyfish)   12
Poecilia_formosa_76   (Amazon molly)   9
Oreochromis_niloticus_76_1.0   (Nile tilapia)   12
Astyanax_mexicanus_76   (Mexican tetra)   11
Danio_rerio_76_9   (Zebrafish)   49
Oikopleura_dioica 16
Ciona_savignyi_76_2.0   (Pacific transparent sea squirt)   14
Ciona_intestinalis_76   (Vase tunicate)   11
Strongylocentrotus_purpuratus_v3.1   (Purple sea urchin)   13
Adineta_vaga 39
Octopus_bimaculoides_280 17
Crassostrea_gigas_22   (Pacific oyster)   4
Lottia_gigantea_   (Owl limpet)   17
Helobdella_robusta_ 22
Capitella_sp._I_ 14
Danaus_plexippus_OGS1.0   (Monarch butterfly)   13
Heliconius_melpomene_   (Postman butterfly)   19
Bombyx_mori_   (Domestic silkworm)   14
Nasonia_vitripennis_   (Jewel wasp)   10
Apis_mellifera_38.2d_(Not_maintained)   (Honey bee)   34
Harpegnathos_saltator_v3.3   (Jerdon's jumping ant)   10
Linepithema_humile_v1.1   (Argentine ant)   11
Pogonomyrmex_barbatus_v1.2   (Red harvester ant)   21
Solenopsis_invicta_v.2.2.3   (Red fire ant)   9
Acromyrmex_echinatior_v3.8   (Panamanian leafcutter ant)   12
Atta_cephalotes_v1.1 18
Camponotus_floridanus_v3.3   (Florida carpenter ant)   11
Lucilia_cuprina   (Australian sheep blowfly)   10
Drosophila_grimshawi_1.3 11
Drosophila_willistoni_1.3 13
Drosophila_pseudoobscura_2.13 8
Drosophila_persimilis_1.3 12
Drosophila_suzukii 11
Drosophila_yakuba_1.3 8
Drosophila_simulans_1.3 11
Drosophila_sechellia_1.3 7
Drosophila_melanogaster_76_5   (Fruit fly)   12
Drosophila_erecta_1.3 9
Drosophila_ananassae_1.3 7
Drosophila_virilis_1.2 9
Drosophila_mojavensis_1.3 9
Megaselia_scalaris_22 8
Aedes_aegypti_55_(Not_maintained)   (Yellow fever mosquito)   19
Culex_pipiens_quinquefasciatus_   (Southern house mosquito)   20
Anopheles_darlingi_22   (American malaria mosquito)   9
Anopheles_gambiae_49_3j   (African malaria mosquito)   10
Tribolium_castaneum_3.0   (Red flour beetle)   7
Pediculus_humanus_corporis__(Early_assembly)   (Human body louse)   10
Acyrthosiphon_pisum_   (Pea aphid)   12
Rhodnius_prolixus_22 9
Daphnia_pulex_   (Common water flea)   26
Strigamia_maritima_22 16
Sarcoptes_scabiei 14
Tetranychus_urticae_   (Two-spotted spider mite)   8
Ixodes_scapularis__(Preliminary)   (Black-legged tick)   14
Pristionchus_pacificus_ 15
Meloidogyne_incognita_   (Southern root-knot nematode)   17
Meloidogyne_hapla_ 9
Onchocerca_volvulus_22 9
Brugia_malayi_WS250   (Agent of lymphatic filariasis)   15
Caenorhabditis_japonica_ 8
Caenorhabditis_brenneri_ 6
Caenorhabditis_remanei_ 12
Caenorhabditis_elegans_76_235   (Roundworm)   16
Caenorhabditis_briggsae_2 6
Trichinella_spiralis_22 17
Hymenolepis_microstoma_ 10
Echinococcus_multilocularis_ 17
Echinococcus_granulosus_ 14
Taenia_solium_   (Pork tapeworm)   13
Schistosoma_mansoni_ 14
Mnemiopsis_leidyi   (Sea walnut)   7
Thelohanellus_kitauei 5
Acropora_digitifera_v1.0 13
Nematostella_vectensis_1.0   (Starlet sea anemone)   20
Hydra_vulgaris 14
Amphimedon_queenslandica 18
Trichoplax_adhaerens_ 7
Proterospongia_sp._ATCC_50818_ 7
Monosiga_brevicollis_ 8
Sphaeroforma_arctica_JP610_ 8
Capsaspora_owczarzaki_ATCC_30864_ 5
Conidiobolus_coronatus_NRRL28638_v1.0 3
Mortierella_verticillata_NRRL_6337_ 5
Phycomyces_blakesleeanus_ 8
Rhizopus_oryzae_RA_99-880_ 12
Mucor_circinelloides_ 3
Rhizomucor_miehei_CAU432_ 7
Malassezia_globosa_CBS_7966_ 8
Sporisorium_reilianum_22 7
Ustilago_maydis_ 3
Mixia_osmundae_IAM_14324_v1.0 4
Cronartium_quercuum_f._sp._fusiforme_G11_v1.0 5
Puccinia_graminis_f._sp._tritici_CRL_75-36-700-3_ 13
Melampsora_laricis-populina_ 4
Rhodotorula_graminis_WP1_v1.0 3
Sporobolomyces_roseus_IAM_13481_ 3
Microbotryum_violaceum_22 4
Wallemia_sebi_v1.0 7
Sphaerobolus_stellatus_v1.0 6
Piloderma_croceum_F_1598_v1.0 7
Serpula_lacrymans_var._lacrymans_S7.9_ 3
Coniophora_puteana 7
Hydnomerulius_pinastri_v2.0 4
Paxillus_rubicundulus_Ve08.2h10_v1.0 5
Pisolithus_microcarpus_441_v1.0 10
Pisolithus_tinctorius_Marx_270_v1.0 8
Scleroderma_citrinum_Foug_A_v1.0 9
Coprinopsis_cinerea_okayama7_130_v3 4
Pleurotus_ostreatus_   (Oyster mushroom)   4
Amanita_thiersii_Skay4041_v1.0 7
Amanita_muscaria_Koide_v1.0   (Fly agaric)   4
Galerina_marginata_v1.0 8
Hebeloma_cylindrosporum_h7_v2.0 6
Laccaria_bicolor_S238N-H82_ 4
Agaricus_bisporus_var._bisporus_ 3
Schizophyllum_commune_ 5
Stereum_hirsutum_FP-91666_SS1__v1.0 7
Heterobasidion_annosum_ 1
Gloeophyllum_trabeumv1.0 6
Punctularia_strigosozonata_v1.0 5
Sebacina_vermifera_MAFF_305830_v1.0 9
Fomitiporia_mediterranea_v1.0 10
Tulasnella_calospora_AL13/4D_v1.0 10
Postia_placenta_ 7
Wolfiporia_cocos_MD-104_SS10__v1.0 6
Fomitopsis_pinicolav1.0 6
Fomitopsis_pinicola_FP-58527_SS1_v3.0 7
Phanerochaete_chrysosporium_RP-78_2.1 5
Dichomitus_squalens 7
Trametes_versicolor_v1.0 5
Tremella_mesenterica_   (Witches' butter)   5
Daldinia_eschscholzii_EC12_v1.0 3
Apiospora_montagnei_NRRL_25634_v1.0 9
Magnaporthe_poae_ATCC_64411_22 0
Magnaporthe_grisea_70-15_ 5
Podospora_anserina_ 3
Sporotrichum_thermophile_ATCC_42464_ 2
Thielavia_terrestris_NRRL_8126_ 2
Chaetomium_globosum_CBS_148.51_ 3
Neurospora_tetrasperma_ 2
Neurospora_discreta_FGSC_8579_ 3
Neurospora_crassa_OR74A_ 2
Cryphonectria_parasitica_   (Chestnut blight fungus)   5
Verticillium_albo-atrum_VaMs.102_ 4
Verticillium_dahliae_VdLs.17_ 2
Acremonium_alcalophilumv_1.0 3
Glomerella_graminicola_22 3
Fusarium_graminearum_ 4
Nectria_haematococca_mpVI_ 2
Fusarium_oxysporum_f._sp._lycopersici_4286_ 3
Fusarium_verticillioides_7600_ 4
Trichoderma_asperellum_CBS_433.97_v1.0 2
Trichoderma_atroviride_ 2
Trichoderma_citrinoviride_v1.0 3
Trichoderma_reesei_1.2 3
Trichoderma_virens_Gv29-8_ 3
Trichoderma_longibrachiatum_ATCC_18648_v1.0 4
Trichoderma_harzianum_CBS_226.95_v1.0 3
Amorphotheca_resinae_v1.0   (Creosote fungus)   4
Botrytis_cinerea_B05.10_ 3
Sclerotinia_sclerotiorum_ 5
Blumeria_graminis_22 4
Didymella_exigua_CBS_183.55_v1.0 7
Leptosphaeria_maculans_22 7
Setosphaeria_turcica_v1.0 4
Cochliobolus_miyabeanus_ATCC_44560_v1.0 4
Cochliobolus_victoriae_FI3_v1.0 4
Cochliobolus_carbonum_26-R-13_v1.0 4
Cochliobolus_heterostrophus_   (Southern corn leaf blight pathogen)   2
Alternaria_brassicicola_ 8
Cochliobolus_lunatus_m118_v2.0 5
Pyrenophora_teres_f._teres_22 7
Pyrenophora_tritici-repentis_ 5
Stagonospora_nodorum_ 4
Mycosphaerella_graminicola_IPO323_ 4
Zasmidium_cellare_ATCC_36951_v1.0 3
Dothistroma_septosporum 5
Septoria_musiva_v1.0 5
Mycosphaerella_fijiensis_CIRAD86_ 3
Aureobasidium_pullulans_var._subglaciale_EXF-2481_v1.0 4
Paracoccidioides_brasiliensis_Pb18_ 4
Coccidioides_posadasii_RMSCC_3488_ 4
Coccidioides_immitis_RS_ 2
Ajellomyces_dermatitidis_SLH14081_ 4
Histoplasma_capsulatum_class_NAmI_strain_WU24_ 2
Microsporum_canis_CBS_113480_ 4
Trichophyton_equinum_CBS_127.97_ 5
Trichophyton_verrucosum_HKI_0517_ 3
Arthroderma_benhamiae_CBS_112371_ 0
Trichophyton_tonsurans_CBS_112818_ 4
Trichophyton_rubrum_CBS_118892_ 4
Uncinocarpus_reesii_1704_ 3
Aspergillus_zonatus_v1.0 3
Penicillium_chrysogenum_Wisconsin_54-1255_ 3
Penicillium_chrysogenum_v1.0 3
Aspergillus_acidus_v1.0 3
Aspergillus_fumigatus_Af293 3
Aspergillus_brasiliensis_v1.0 2
Aspergillus_nidulans_FGSC_A4_ 4
Aspergillus_sydowii_v1.0 4
Aspergillus_versicolor_v1.0 4
Aspergillus_glaucus 3
Aspergillus_carbonarius_ITEM_5010_ 3
Neosartorya_fischeri_NRRL_181_ 3
Aspergillus_terreus_NIH2624_ 3
Aspergillus_tubingensis_v1.0 4
Aspergillus_wentii_v1.0 4
Aspergillus_oryzae_RIB40_ 5
Aspergillus_niger_22 3
Aspergillus_niger_ATCC_1015_ 2
Aspergillus_flavus_NRRL3357_ 3
Aspergillus_clavatus_NRRL_1_ 3
Penicillium_marneffei_ATCC_18224_ 4
Tuber_melanosporum_Mel28_22 4
Tuber_melanosporum_Vittad_   (Perigord truffle)   4
Hansenula_polymorpha_v2.0 4
Dekkera_bruxellensis_CBS_2499_v2.0 5
Pichia_membranifaciensv1.0 4
Candida_tanzawaensis_NRRL_Y-17324__v1.0 4
Candida_dubliniensis_CD36_ 3
Candida_tropicalis_MYA-3404_ 5
Candida_parapsilosis_ 4
Candida_albicans_SC5314 3
Lodderomyces_elongisporus_NRRL_YB-4239_ 3
Babjeviella_inositovora_NRRL_Y-12698_v1.0 5
Pichia_stipitis_CBS_6054_ 3
Candida_guilliermondii_ATCC_6260_ 4
Hyphopichia_burtonii_NRRL_Y-1933_v1.0 5
Debaromyces_hansenii 4
Wickerhamomyces_anomalus 6
Pichia_pastoris_GS115_ 4
Hanseniaspora_valbyensis_NRRL_Y-1626_v1.1 1
Yarrowia_lipolytica_CLIB122 5
Candida_lusitaniae_ATCC_42720_ 4
Metschnikowia_bicuspidata_NRRL_YB-4993_v1.0 5
Vanderwaltozyma_polyspora_DSM_70294_ 4
Candida_glabrata_CBS138 7
Kluyveromyces_thermotolerans_CBS_6340 6
Lachancea_kluyveri_ 5
Kluyveromyces_waltii 5
Ashbya_gossypii_ATCC_10895_ 4
Zygosaccharomyces_rouxii_ 4
Saccharomyces_mikatae_MIT 8
Saccharomyces_paradoxus_MIT 7
Saccharomyces_cerevisiae_76   (Baker's yeast)   8
Saccharomyces_bayanus_MIT 10
Kluyveromyces_lactis 4
Schizosaccharomyces_cryophilus_OY26_22 3
Schizosaccharomyces_octosporus_yFS286_ 3
Schizosaccharomyces_japonicus_yFS275_ 3
Schizosaccharomyces_pombe   (Fission yeast)   3
Catenaria_anguillulae_PL171_v1.0 12
Allomyces_macrogynus_ATCC_38327_ 16
Spizellomyces_punctatus_DAOM_BR117_ 5
Dictyostelium_discoideum 7
Dictyostelium_purpureum_ 6
Entamoeba_dispar_1.2 3
Entamoeba_invadens_1.2 8
Entamoeba_histolytica_1 3
Selaginella_moellendorffii_ 22
Pinus_taeda   (Loblolly pine)   54
Picea_abies   (Norway spruce)   15
Eucalyptus_grandis_v201   (Rose gum)   28
Theobroma_cacao_B97-61/B2_v1   (Cacao)   20
Gossypium_raimondii_v221 74
Citrus_clementina_v165 21
Citrus_sinensis_v154   (Sweet orange)   49
Thellungiella_halophila_v173 31
Brassica_rapa_Chiifu-401_1.2   (Field mustard)   33
Capsella_rubella_v183 30
Arabidopsis_lyrata_   (Lyrate rockcress)   28
Arabidopsis_thaliana_10   (Thale cress)   28
Carica_papaya_   (Papaya)   18
Medicago_truncatula_   (Barrel medic)   38
Phaseolus_vulgaris_v186   (French bean)   12
Glycine_max_v109   (Soybean)   44
Cucumis_sativus_v122   (Cucumber)   32
Fragaria_vesca_   (Wild strawberry)   17
Malus_domestica_v196   (Apple)   36
Prunus_persica_v139   (Peach)   11
Linum_usitatissimum_v200   (Flax)   23
Manihot_esculenta_v147   (Cassava)   23
Populus_trichocarpa_v156   (Black cottonwood)   25
Vitis_vinifera_   (Wine grape)   22
Mimulus_guttatus_v140   (Spotted monkey flower)   22
Solanum_lycopersicum_v.2.3   (Tomato)   29
Solanum_tuberosum_   (Potato)   35
Actinidia_chinensis_Hongyang_ 31
Aquilegia_coerulea_v195 47
Triticum_urartu_22 27
Triticum_aestivum_22   (Bread wheat)   83
Aegilops_tauschii_22 28
Brachypodium_distachyon_   (Stiff brome)   24
Oryza_barthii_22   (African wild rice)   25
Oryza_meridionalis_22 28
Oryza_glumaepatula_22 25
Oryza_glaberrima   (African rice)   20
Oryza_punctata_22 23
Oryza_nivara_22 30
Oryza_brachyantha_22   (Malo sina)   18
Oryza_sativa_ssp._japonica_5.0   (Japanese rice)   35
Oryza_sativa_v193   (Rice)   34
Phyllostachys_heterocyclavar._pubescens   (Kikko-chiku)   30
Panicum_virgatum_v202   (Switchgrass)   76
Setaria_italica_v164   (Foxtail millet)   35
Zea_mays_subsp._mays_   (Maize)   61
Zea_mays_v181   (Maize)   66
Sorghum_bicolor_   (Sorghum)   27
Musa_balbisiana   (Balbis banana)   23
Musa_acuminata_22   (Wild Malaysian banana)   28
Amborella_trichopoda_22 15
Physcomitrella_patens 17
Coccomyxa_subellipsoidea_sp._C-169_v2 5
Asterochloris_sp._Cgr/DA1pho_v1.0 4
Chlorella_variabilis_sp._NC64A_ 5
Chlorella_vulgaris_ 6
Volvox_carteri_f._nagariensis_ 6
Volvox_carteri_v199 5
Chlamydomonas_reinhardtii_4.0 8
Ostreococcus_sp._RCC809_ 6
Ostreococcus_lucimarinus_CCE9901_ 8
Ostreococcus_tauri_ 7
Bathycoccus_prasinos_ 2
Micromonas_sp._RCC299_ 5
Micromonas_pusilla_CCMP1545_v3.0 3
Cyanidioschyzon_merolae_strain_10D_22 2
Cyanidioschyzon_merolae 1
Porphyridium_purpureum_02_2012 8
Thecamonas_trahens_ATCC_50062_ 4
Bigelowiella_natans_CCMP2755_22 15
Giardia_lamblia_2.3 2
Cyanophora_paradoxa_ 14
Leishmania_mexicana_2.4 5
Leishmania_major_strain_Friedlin_ 7
Leishmania_infantum_JPCM5_2.4 8
Leishmania_braziliensis_MHOM/BR/75/M2904_2.4 9
Trypanosoma_vivax_ 9
Trypanosoma_cruzi_strain_CL_Brener 7
Trypanosoma_congolense_2.4 10
Trypanosoma_brucei_gambiense_v4.1 10
Trypanosoma_brucei_TREU927_v4.1 10
Ectocarpus_siliculosus 9
Aureococcus_anophagefferens_ 5
Albugo_laibachii_22 8
Pythium_iwayamai_DAOM_BR242034_22 10
Pythium_arrhenomanes_ATCC_12531_22 8
Pythium_ultimum_v1.7-2 10
Pythium_aphanidermatum_DAOM_BR444_22 7
Pythium_irregulare_DAOM_BR486_22 10
Pythium_vexans_DAOM_BR484_22 7
Phytophthora_ramorum_1.1   (Sudden oak death agent)   5
Phytophthora_sojae_1.1 6
Phytophthora_infestans_T30-4_ 11
Phytophthora_capsici_ 9
Hyaloperonospora_arabidopsidis_22 7
Phaeodactylum_tricornutumCCAP_1055/1 8
Fragilariopsis_cylindrus 10
Thalassiosira_pseudonana_CCMP1335 10
Perkinsus_marinus_ATCC_50983_ 27
Paramecium_tetraurelia_ 34
Tetrahymena_thermophila_SB210_1_ 10
Ichthyophthirius_multifiliis_strain_G5_ 6
Cryptosporidium_hominis 1
Cryptosporidium_muris 2
Cryptosporidium_parvum_Iowa_II 1
Neospora_caninum 8
Toxoplasma_gondii_VEG 10
Toxoplasma_gondii_ME49 11
Toxoplasma_gondii_GT1 9
Babesia_bovis_T2Bo_ 6
Theileria_parva__ 4
Theileria_annulata 5
Plasmodium_falciparum_3D7_ 4
Plasmodium_vivax_SaI-1_7.0 6
Plasmodium_knowlesi_strain_H_ 8
Plasmodium_yoelii_ssp._yoelii_1_ 4
Plasmodium_chabaudi_ 5
Plasmodium_berghei_ANKA_ 6
Symbiodinium_minutum_clade_B1_v1.2 39
Naegleria_gruberi_ 5
Trichomonas_vaginalis_ 21
Guillardia_theta_CCMP2712_v1.0_ 18
Emiliania_huxleyi_CCMP1516_ 15
Thermincola_potens_JR 1
Parabacteroides_distasonis_ATCC_8503 0
Prevotella_denticola_F0289 0
Porphyromonas_gingivalis_ATCC_33277 0
Flavobacterium_psychrophilum_JIP02/86 0
Flavobacterium_branchiophilum_FL-15 0
Flavobacterium_columnare_ATCC_49512 0
Flavobacterium_johnsoniae_UW101 0
Rhodopirellula_baltica_SH_1 0
Akkermansia_muciniphila_ATCC_BAA-835 1
Spirochaeta_caldaria_DSM_7334 1
Treponema_brennaborense_DSM_12168 0
Treponema_denticola_ATCC_35405 1
Leptothrix_cholodnii_SP-6 1
Polaromonas_naphthalenivorans_CJ2 1
Oceanimonas_sp._GK1 1
Tolumonas_auensis_DSM_9187 1
Aeromonas_veronii_B565 1
Aeromonas_salmonicida_subsp._salmonicida_A449 1
Aeromonas_hydrophila_subsp._hydrophila_ATCC_7966 1
Aliivibrio_salmonicida_LFI1238 1
Vibrio_fischeri_MJ11 1
Vibrio_harveyi_ATCC_BAA-1116 1
Vibrio_parahaemolyticus_RIMD_2210633 1
Vibrio_splendidus_LGP32 1
Vibrio_vulnificus_MO6-24/O 1
Vibrio_cholerae_O395 1
Photobacterium_profundum_SS9 1
Psychromonas_ingrahamii_37 1
Psychromonas_sp._CNPT3 1
Shewanella_piezotolerans_WP3 1
Shewanella_loihica_PV-4 1
Shewanella_halifaxensis_HAW-EB4 1
Shewanella_sediminis_HAW-EB3 1
Shewanella_denitrificans_OS217 1
Shewanella_pealeana_ATCC_700345 1
Shewanella_oneidensis_MR-1 1
Shewanella_baltica_OS185 1
Shewanella_woodyi_ATCC_51908 1
Shewanella_sp._MR-4 1
Shewanella_amazonensis_SB2B 1
Shewanella_violacea_DSS12 1
Shewanella_frigidimarina_NCIMB_400 1
Shewanella_putrefaciens_CN-32 1
Colwellia_psychrerythraea_34H 1
Pseudoalteromonas_sp._SM9913 1
Pseudoalteromonas_atlantica_T6c 1
Pseudoalteromonas_haloplanktis_TAC125 1
Glaciecola_sp._4H-3-7+YE-5 1
Glaciecola_nitratireducens_FR1064 1
Alteromonas_sp._SN2 1
Alteromonas_macleodii_str._'Deep_ecotype' 1
Methylococcus_capsulatus_str._Bath 1
Psychrobacter_sp._G 0
Psychrobacter_arcticus_273-4 0
Psychrobacter_cryohalolentis_K5 0

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Strains
Genome     Number
Xenopus_(Silurana)_tropicalis_v7.1_(annotation_v7.2)   (Tropical clawed frog)   18
Drosophila_melanogaster_FlyBase_5.12_(FlyBase)   (Fruit fly)   13
Anopheles_gambiae_VectorBase_AgamP3.6__(VectorBase)   (African malaria mosquito)   10
Ascaris_suum_Victoria/Ghent_   (Pig roundworm)   18
Caenorhabditis_elegans_WormBase_WS218__(WormBase)   (Roundworm)   9
Cryptococcus_neoformans_var._grubii_H99_ 4
Cryptococcus_neoformans_B-3501A_ 3
Cryptococcus_neoformans_JEC21_ 4
Paracoccidioides_brasiliensis_Pb01_ 3
Paracoccidioides_brasiliensis_Pb03_ 3
Coccidioides_posadasii_str._Silveira_ 3
Coccidioides_immitis_RMSCC_3703_ 6
Coccidioides_immitis_RMSCC_2394_ 3
Coccidioides_immitis_H538.4_ 7
Ajellomyces_dermatitidis_ER-3_ 3
Histoplasma_capsulatum_H143 5
Histoplasma_capsulatum_H88 3
Histoplasma_capsulatum_G186AR 3
Aspergillus_fumigatus_A1163_ 3
Candida_albicans_WO-1_ 4
Saccharomyces_cerevisiae_UC5 7
Saccharomyces_cerevisiae_PW5 7
Saccharomyces_cerevisiae_FL100 1
Saccharomyces_cerevisiae_CLIB382 0
Saccharomyces_cerevisiae_CLIB324 4
Saccharomyces_cerevisiae_CBS7960 5
Saccharomyces_cerevisiae_YJM269 4
Saccharomyces_cerevisiae_T7 8
Saccharomyces_cerevisiae_FostersB 6
Saccharomyces_cerevisiae_FostersO 12
Saccharomyces_cerevisiae_VL3 9
Saccharomyces_cerevisiae_Vin13 9
Saccharomyces_cerevisiae_LalvinQA23 7
Saccharomyces_cerevisiae_AWRI796 10
Saccharomyces_cerevisiae_Sigma1278b 8
Saccharomyces_cerevisiae_W303 8
Saccharomyces_cerevisiae_JAY291 8
Saccharomyces_cerevisiae_AWRI1631 6
Saccharomyces_cerevisiae_YPS163 0
Saccharomyces_cerevisiae_M22 1
Saccharomyces_cerevisiae_T73 5
Saccharomyces_cerevisiae_CLIB215 5
Saccharomyces_cerevisiae_Y10 2
Saccharomyces_cerevisiae_YJM789_ 8
Saccharomyces_cerevisiae_YJM789 8
Saccharomyces_cerevisiae_RM11-1a 7
Saccharomyces_cerevisiae_RM11-1a_ 6
Saccharomyces_cerevisiae_SGD_(SGD)   (Baker's yeast)   8
Schizosaccharomyces_pombe_972h-_ 3
Batrachochytrium_dendrobatidis_JEL423_ 9
Batrachochytrium_dendrobatidis_JAM81_ 7
Theobroma_cacao_Matina_1-6_v0.9   (Cacao)   17
Hordeum_vulgare_22   (Domesticated barley)   58
Oryza_sativa_ssp._Indica_(Subspecies)   (Long-grained rice)   26
Trypanosoma_brucei_Lister_427_v4.1 10
Neospora_caninum_Nc-Liverpool_6.2 8
Plasmodium_falciparum_HB3_ 5
Plasmodium_falciparum_Dd2_ 5
Anabaena_cylindrica_PCC_7122 1
Porphyromonas_gingivalis_TDC60 0
Porphyromonas_gingivalis_W83 0
Aeromonas_hydrophila_ML09-119 1
Vibrio_fischeri_ES114 1
Vibrio_alginolyticus_NBRC_15630_=_ATCC_17749 1
Vibrio_anguillarum_Listonella_anguillarum_M3 1
Vibrio_nigripulchritudo_VibrioScope 1
Vibrio_vulnificus_CMCP6 1
Vibrio_vulnificus_YJ016 1
Vibrio_cholerae_M66-2 1
Vibrio_cholerae_O395 1
Vibrio_cholerae_IEC224 1
Vibrio_cholerae_O1_str._2010EL-1786 1
Vibrio_cholerae_MJ-1236 1
Vibrio_cholerae_O1_biovar_El_Tor_str._N16961 1
Shewanella_sp._W3-18-1 1
Shewanella_sp._ANA-3 1
Shewanella_baltica_BA175 1
Shewanella_baltica_OS678 1
Shewanella_baltica_OS117 1
Shewanella_baltica_OS223 1
Shewanella_baltica_OS195 1
Shewanella_baltica_OS155 1
Shewanella_sp._MR-7 1
Shewanella_putrefaciens_200 1
Glaciecola_psychrophila_170 1
Alteromonas_macleodii_str._'Ionian_Sea_UM7' 1
Alteromonas_macleodii_str._'Ionian_Sea_U8' 1
Alteromonas_macleodii_str._'Ionian_Sea_U7' 1
Alteromonas_macleodii_str._'Aegean_Sea_MED64' 1
Alteromonas_macleodii_str._'English_Channel_615' 1
Alteromonas_macleodii_AltDE1 1
Alteromonas_macleodii_str._'English_Channel_673' 1
Alteromonas_macleodii_str._'Balearic_Sea_AD45' 1
Alteromonas_macleodii_str._'Black_Sea_11' 1
Alteromonas_macleodii_ATCC_27126 1

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Longest transcript per gene
Genome     Number
Homo_sapiens_69_37   (Human)   7
Pan_troglodytes_69_2.1.4   (Chimpanzee)   6
Gorilla_gorilla_69_3.1   (Western gorilla)   9
Pongo_abelii_69_2   (Sumatran orangutan)   8
Nomascus_leucogenys_69_1.0   (Northern white-cheeked gibbon)   9
Macaca_mulatta_69_1   (Rhesus monkey)   9
Callithrix_jacchus_69_3.2.1   (White-tufted-ear marmoset)   11
Otolemur_garnettii_69_3   (Small-eared galago)   12
Microcebus_murinus_69_1   (Gray mouse lemur)   9
Rattus_norvegicus_69_3.4   (Norway rat)   13
Mus_musculus_69_38   (House mouse)   11
Dipodomys_ordii_69_1   (Ord's kangaroo rat)   7
Ictidomys_tridecemlineatus_69_2   (Thirteen-lined ground squirrel)   8
Cavia_porcellus_69_3   (Domestic guinea pig)   7
Oryctolagus_cuniculus_69_2   (Rabbit)   11
Ochotona_princeps_69   (American pika)   9
Tupaia_belangeri_69   (Northern tree shrew)   10
Sus_scrofa_69_10.2   (Pig)   17
Bos_taurus_69_3.1   (Cattle)   10
Vicugna_pacos_69_1   (Alpaca)   4
Tursiops_truncatus_69_1   (Bottlenose dolphin)   6
Mustela_putorius_furo_69_1.0   (Domestic ferret)   10
Ailuropoda_melanoleuca_69_1   (Giant panda)   10
Canis_familiaris_69_3.1   (Dog)   8
Felis_catus_69   (Domestic cat)   10
Equus_caballus_69_2   (Horse)   12
Myotis_lucifugus_69_2.0   (Little brown bat)   15
Pteropus_vampyrus_69_1   (Large flying fox)   7
Sorex_araneus_69_1   (European shrew)   7
Erinaceus_europaeus_69   (Western European hedgehog)   9
Procavia_capensis_69_1   (Cape rock hyrax)   14
Loxodonta_africana_69_3   (African savanna elephant)   12
Echinops_telfairi_69   (Small Madagascar hedgehog)   12
Dasypus_novemcinctus_69_2   (Nine-banded armadillo)   8
Choloepus_hoffmanni_69_1   (Hoffmann's two-fingered sloth)   6
Macropus_eugenii_69_1.0   (Tammar wallaby)   7
Sarcophilus_harrisii_69_7.0   (Tasmanian devil)   7
Monodelphis_domestica_69_5   (Gray short-tailed opossum)   11
Ornithorhynchus_anatinus_69_5   (Platypus)   18
Petromyzon_marinus_69_7.0   (Sea lamprey)   8
Meleagris_gallopavo_69_2   (Turkey)   7
Gallus_gallus_69_2   (Chicken)   5
Taeniopygia_guttata_69_3.2.4   (Zebra finch)   8
Pelodiscus_sinensis_69_1.0   (Chinese soft-shelled turtle)   11
Anolis_carolinensis_69_2.0   (Green anole)   10
Xenopus_tropicalis_69_4.2   (Tropical clawed frog)   4
Latimeria_chalumnae_69_1   (Coelacanth)   12
Gadus_morhua_69_1   (Atlantic cod)   8
Tetraodon_nigroviridis_69_8   (Spotted green pufferfish)   8
Takifugu_rubripes_69_4   (Torafugu)   6
Gasterosteus_aculeatus_69_1   (Three-spined stickleback)   8
Oryzias_latipes_69_1   (Japanese medaka)   11
Xiphophorus_maculatus_69_4.4.2   (Southern platyfish)   12
Oreochromis_niloticus_69_1.0   (Nile tilapia)   8
Danio_rerio_69_9   (Zebrafish)   11
Ciona_savignyi_69_2.0   (Pacific transparent sea squirt)   10
Ciona_intestinalis_69   (Vase tunicate)   11
Drosophila_melanogaster_69_5   (Fruit fly)   8
Caenorhabditis_elegans_69_215   (Roundworm)   7
Saccharomyces_cerevisiae_69_4   (Baker's yeast)   8
Arabidopsis_thaliana_10   (Thale cress)   20

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Others
Genome     Number
Homo_sapiens_75_37_(old_version_GRC)   (Human)   99
Homo_sapiens__(NCBI_version)   (Human)   9
Mus_musculus_63_37__(longest_transcript_per_gene)_(Duplicate)   (House mouse)   9
Heliconius_numata__(Incomplete) 10
Loa_loa_v3.3_(Request)   (Eye worm)   10
Wuchereria_bancrofti_v1.0_(Request)   (Agent of lymphatic filariasis)   25
Brugia_malayi_v1.0_(Duplicate)   (Agent of lymphatic filariasis)   13
Moniliophthora_perniciosa_FA553__(Genome_survey) 8
Encephalitozoon_intestinalis__(endoparasite) 4
Encephalitozoon_cuniculi_(endoparasite) 4
Picea_sitchensis__(Incomplete)   (Sitka spruce)   5
Lotus_japonicus__(Early_assembly) 38
Malus_x_domestica_(Duplicate)   (Apple)   36
Ricinus_communis__(Early_assembly)   (Castor bean)   11
Nicotiana_benthamiana_0.4.4_(Early_draft) 32
Solanum_pimpinellifolium_A-1.0_(Early_draft)   (Currant tomato)   25
Solanum_lycopersicum_v2.3_(Early_assembly)   (Tomato)   29
Phoenix_dactylifera__(Early_draft)   (Date palm)   24
Guillardia_theta_(nucleomorph) 0
Vibrio_campbellii_ATCC_BAA-1116_(Duplicate_of_NC) 1
NCBI_plasmid_sequences_(Plasmids) 1
Protein_Data_Bank_(all_PDB_sequenc) 22
Core_Eukaryotic_Genes_458_(CEGMA) 6
UniProt__viral_sequences_(Viral) 23
SCOP2_SCOPe_CATH_ECOD_(all_domain_sequ) 67
PDB_chains_(SCOP_1.75)_(PDB) 6
Protozoadb_2010_08_(Protozoadb) 216
NCBI_viral_sequences_(Viral) 26
STRING_v9.0.5_(STRING) 1098
Uniprot_2018_03_genome 47436
NCBI_2017_08_genome 12903
TargetDB__(Targets) 70

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Please cite: Gough, J., Karplus, K., Hughey, R. and Chothia, C. (2001). "Assignment of Homology to Genome Sequences using a Library of Hidden Markov Models that Represent all Proteins of Known Structure." J. Mol. Biol., 313(4), 903-919.

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© Copyright 2013 The SUPERFAMILY authors and Julian Gough.