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  Home > SCOP hierarchy > Domain combination - 54236,_gap_

Domain combinations for 54236,_gap_ superfamilies in groups of genomes

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

54236 - Ubiquitin-like

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)   166
Pan_troglodytes_76_2.1.4   (Chimpanzee)   13
Gorilla_gorilla_76_3.1   (Western gorilla)   18
Pongo_abelii_76_2   (Sumatran orangutan)   10
Nomascus_leucogenys_76_1.0   (Northern white-cheeked gibbon)   14
Papio_anubis_76   (Olive baboon)   16
Macaca_mulatta_76_1   (Rhesus monkey)   23
Callithrix_jacchus_76_3.2.1   (White-tufted-ear marmoset)   27
Otolemur_garnettii_76_3   (Small-eared galago)   11
Microcebus_murinus_76_1   (Gray mouse lemur)   6
Rattus_norvegicus_76_5.0   (Norway rat)   13
Mus_musculus_76_38   (House mouse)   29
Dipodomys_ordii_76_1   (Ord's kangaroo rat)   13
Ictidomys_tridecemlineatus_76_2   (Thirteen-lined ground squirrel)   11
Heterocephalus_glaber_v1.7-2   (Naked mole-rat)   16
Cavia_porcellus_76_3   (Domestic guinea pig)   15
Oryctolagus_cuniculus_76_2   (Rabbit)   9
Ochotona_princeps_76   (American pika)   9
Tupaia_belangeri_76   (Northern tree shrew)   9
Sus_scrofa_76_10.2   (Pig)   23
Bos_taurus_76_3.1   (Cattle)   19
Ovis_aries_76_3.1   (Sheep)   9
Vicugna_pacos_76_1   (Alpaca)   4
Tursiops_truncatus_76_1   (Bottlenose dolphin)   11
Mustela_putorius_furo_76_1.0   (Domestic ferret)   13
Ailuropoda_melanoleuca_76_1   (Giant panda)   16
Canis_familiaris_76_3.1   (Dog)   16
Felis_catus_76_6.2   (Domestic cat)   10
Equus_caballus_76_2   (Horse)   13
Myotis_lucifugus_76_2.0   (Little brown bat)   12
Pteropus_vampyrus_76_1   (Large flying fox)   11
Sorex_araneus_76_1   (European shrew)   9
Erinaceus_europaeus_76   (Western European hedgehog)   6
Procavia_capensis_76_1   (Cape rock hyrax)   9
Loxodonta_africana_76_3   (African savanna elephant)   17
Echinops_telfairi_76   (Small Madagascar hedgehog)   10
Dasypus_novemcinctus_76_2   (Nine-banded armadillo)   9
Choloepus_hoffmanni_76_1   (Hoffmann's two-fingered sloth)   7
Macropus_eugenii_76_1.0   (Tammar wallaby)   13
Sarcophilus_harrisii_76_7.0   (Tasmanian devil)   19
Monodelphis_domestica_76_5   (Gray short-tailed opossum)   14
Ornithorhynchus_anatinus_76_5   (Platypus)   10
Saccoglossus_kowalevskii_v3.0 14
Petromyzon_marinus_76_7.0   (Sea lamprey)   7
Meleagris_gallopavo_76_2   (Turkey)   6
Gallus_gallus_76_4   (Chicken)   6
Anas_platyrhynchos_76_1.0   (Mallard)   7
Taeniopygia_guttata_76_3.2.4   (Zebra finch)   11
Ficedula_albicollis_76_1.0   (Collared flycatcher)   9
Pelodiscus_sinensis_76_1.0   (Chinese soft-shelled turtle)   8
Anolis_carolinensis_76_2.0   (Green anole)   11
Xenopus_laevis_   (African clawed frog)   45
Xenopus_tropicalis_76_4.2   (Tropical clawed frog)   18
Latimeria_chalumnae_76_1   (Coelacanth)   16
Lepisosteus_oculatus_76   (Spotted gar)   15
Gadus_morhua_76_1   (Atlantic cod)   18
Tetraodon_nigroviridis_76_8   (Spotted green pufferfish)   15
Takifugu_rubripes_76_4   (Torafugu)   46
Gasterosteus_aculeatus_76_1   (Three-spined stickleback)   21
Oryzias_latipes_76_1   (Japanese medaka)   16
Xiphophorus_maculatus_76_4.4.2   (Southern platyfish)   16
Poecilia_formosa_76   (Amazon molly)   18
Oreochromis_niloticus_76_1.0   (Nile tilapia)   19
Astyanax_mexicanus_76   (Mexican tetra)   18
Danio_rerio_76_9   (Zebrafish)   40
Oikopleura_dioica 8
Ciona_savignyi_76_2.0   (Pacific transparent sea squirt)   15
Ciona_intestinalis_76   (Vase tunicate)   11
Strongylocentrotus_purpuratus_v3.1   (Purple sea urchin)   13
Adineta_vaga 37
Octopus_bimaculoides_280 14
Crassostrea_gigas_22   (Pacific oyster)   9
Lottia_gigantea_   (Owl limpet)   8
Helobdella_robusta_ 8
Capitella_sp._I_ 9
Danaus_plexippus_OGS1.0   (Monarch butterfly)   10
Heliconius_melpomene_   (Postman butterfly)   12
Bombyx_mori_   (Domestic silkworm)   13
Nasonia_vitripennis_   (Jewel wasp)   4
Apis_mellifera_38.2d_(Not_maintained)   (Honey bee)   12
Harpegnathos_saltator_v3.3   (Jerdon's jumping ant)   4
Linepithema_humile_v1.1   (Argentine ant)   9
Pogonomyrmex_barbatus_v1.2   (Red harvester ant)   9
Solenopsis_invicta_v.2.2.3   (Red fire ant)   6
Acromyrmex_echinatior_v3.8   (Panamanian leafcutter ant)   8
Atta_cephalotes_v1.1 10
Camponotus_floridanus_v3.3   (Florida carpenter ant)   6
Lucilia_cuprina   (Australian sheep blowfly)   7
Drosophila_grimshawi_1.3 7
Drosophila_willistoni_1.3 8
Drosophila_pseudoobscura_2.13 6
Drosophila_persimilis_1.3 9
Drosophila_suzukii 10
Drosophila_yakuba_1.3 8
Drosophila_simulans_1.3 9
Drosophila_sechellia_1.3 12
Drosophila_melanogaster_76_5   (Fruit fly)   19
Drosophila_erecta_1.3 8
Drosophila_ananassae_1.3 9
Drosophila_virilis_1.2 6
Drosophila_mojavensis_1.3 6
Megaselia_scalaris_22 4
Aedes_aegypti_55_(Not_maintained)   (Yellow fever mosquito)   7
Culex_pipiens_quinquefasciatus_   (Southern house mosquito)   6
Anopheles_darlingi_22   (American malaria mosquito)   3
Anopheles_gambiae_49_3j   (African malaria mosquito)   5
Tribolium_castaneum_3.0   (Red flour beetle)   9
Pediculus_humanus_corporis__(Early_assembly)   (Human body louse)   12
Acyrthosiphon_pisum_   (Pea aphid)   9
Rhodnius_prolixus_22 7
Daphnia_pulex_   (Common water flea)   6
Strigamia_maritima_22 10
Sarcoptes_scabiei 7
Tetranychus_urticae_   (Two-spotted spider mite)   12
Ixodes_scapularis__(Preliminary)   (Black-legged tick)   7
Pristionchus_pacificus_ 7
Meloidogyne_incognita_   (Southern root-knot nematode)   10
Meloidogyne_hapla_ 3
Onchocerca_volvulus_22 7
Brugia_malayi_WS250   (Agent of lymphatic filariasis)   6
Caenorhabditis_japonica_ 10
Caenorhabditis_brenneri_ 5
Caenorhabditis_remanei_ 7
Caenorhabditis_elegans_76_235   (Roundworm)   9
Caenorhabditis_briggsae_2 7
Trichinella_spiralis_22 6
Hymenolepis_microstoma_ 4
Echinococcus_multilocularis_ 8
Echinococcus_granulosus_ 10
Taenia_solium_   (Pork tapeworm)   9
Schistosoma_mansoni_ 9
Mnemiopsis_leidyi   (Sea walnut)   6
Thelohanellus_kitauei 5
Acropora_digitifera_v1.0 10
Nematostella_vectensis_1.0   (Starlet sea anemone)   8
Hydra_vulgaris 7
Amphimedon_queenslandica 25
Trichoplax_adhaerens_ 5
Proterospongia_sp._ATCC_50818_ 8
Monosiga_brevicollis_ 4
Sphaeroforma_arctica_JP610_ 8
Capsaspora_owczarzaki_ATCC_30864_ 6
Conidiobolus_coronatus_NRRL28638_v1.0 3
Mortierella_verticillata_NRRL_6337_ 7
Phycomyces_blakesleeanus_ 8
Rhizopus_oryzae_RA_99-880_ 6
Mucor_circinelloides_ 5
Rhizomucor_miehei_CAU432_ 5
Malassezia_globosa_CBS_7966_ 6
Sporisorium_reilianum_22 2
Ustilago_maydis_ 2
Mixia_osmundae_IAM_14324_v1.0 3
Cronartium_quercuum_f._sp._fusiforme_G11_v1.0 3
Puccinia_graminis_f._sp._tritici_CRL_75-36-700-3_ 2
Melampsora_laricis-populina_ 2
Rhodotorula_graminis_WP1_v1.0 3
Sporobolomyces_roseus_IAM_13481_ 3
Microbotryum_violaceum_22 2
Wallemia_sebi_v1.0 2
Sphaerobolus_stellatus_v1.0 5
Piloderma_croceum_F_1598_v1.0 7
Serpula_lacrymans_var._lacrymans_S7.9_ 4
Coniophora_puteana 4
Hydnomerulius_pinastri_v2.0 6
Paxillus_rubicundulus_Ve08.2h10_v1.0 7
Pisolithus_microcarpus_441_v1.0 8
Pisolithus_tinctorius_Marx_270_v1.0 7
Scleroderma_citrinum_Foug_A_v1.0 6
Coprinopsis_cinerea_okayama7_130_v3 4
Pleurotus_ostreatus_   (Oyster mushroom)   5
Amanita_thiersii_Skay4041_v1.0 4
Amanita_muscaria_Koide_v1.0   (Fly agaric)   5
Galerina_marginata_v1.0 6
Hebeloma_cylindrosporum_h7_v2.0 6
Laccaria_bicolor_S238N-H82_ 6
Agaricus_bisporus_var._bisporus_ 5
Schizophyllum_commune_ 5
Stereum_hirsutum_FP-91666_SS1__v1.0 4
Heterobasidion_annosum_ 5
Gloeophyllum_trabeumv1.0 4
Punctularia_strigosozonata_v1.0 4
Sebacina_vermifera_MAFF_305830_v1.0 4
Fomitiporia_mediterranea_v1.0 5
Tulasnella_calospora_AL13/4D_v1.0 9
Postia_placenta_ 4
Wolfiporia_cocos_MD-104_SS10__v1.0 6
Fomitopsis_pinicolav1.0 6
Fomitopsis_pinicola_FP-58527_SS1_v3.0 6
Phanerochaete_chrysosporium_RP-78_2.1 2
Dichomitus_squalens 7
Trametes_versicolor_v1.0 4
Tremella_mesenterica_   (Witches' butter)   4
Daldinia_eschscholzii_EC12_v1.0 5
Apiospora_montagnei_NRRL_25634_v1.0 4
Magnaporthe_poae_ATCC_64411_22 1
Magnaporthe_grisea_70-15_ 2
Podospora_anserina_ 1
Sporotrichum_thermophile_ATCC_42464_ 2
Thielavia_terrestris_NRRL_8126_ 2
Chaetomium_globosum_CBS_148.51_ 1
Neurospora_tetrasperma_ 2
Neurospora_discreta_FGSC_8579_ 2
Neurospora_crassa_OR74A_ 2
Cryphonectria_parasitica_   (Chestnut blight fungus)   3
Verticillium_albo-atrum_VaMs.102_ 6
Verticillium_dahliae_VdLs.17_ 6
Acremonium_alcalophilumv_1.0 4
Glomerella_graminicola_22 5
Fusarium_graminearum_ 3
Nectria_haematococca_mpVI_ 5
Fusarium_oxysporum_f._sp._lycopersici_4286_ 4
Fusarium_verticillioides_7600_ 3
Trichoderma_asperellum_CBS_433.97_v1.0 3
Trichoderma_atroviride_ 5
Trichoderma_citrinoviride_v1.0 6
Trichoderma_reesei_1.2 4
Trichoderma_virens_Gv29-8_ 4
Trichoderma_longibrachiatum_ATCC_18648_v1.0 6
Trichoderma_harzianum_CBS_226.95_v1.0 4
Amorphotheca_resinae_v1.0   (Creosote fungus)   5
Botrytis_cinerea_B05.10_ 5
Sclerotinia_sclerotiorum_ 6
Blumeria_graminis_22 4
Didymella_exigua_CBS_183.55_v1.0 3
Leptosphaeria_maculans_22 2
Setosphaeria_turcica_v1.0 3
Cochliobolus_miyabeanus_ATCC_44560_v1.0 3
Cochliobolus_victoriae_FI3_v1.0 3
Cochliobolus_carbonum_26-R-13_v1.0 3
Cochliobolus_heterostrophus_   (Southern corn leaf blight pathogen)   5
Alternaria_brassicicola_ 3
Cochliobolus_lunatus_m118_v2.0 3
Pyrenophora_teres_f._teres_22 3
Pyrenophora_tritici-repentis_ 4
Stagonospora_nodorum_ 5
Mycosphaerella_graminicola_IPO323_ 5
Zasmidium_cellare_ATCC_36951_v1.0 2
Dothistroma_septosporum 2
Septoria_musiva_v1.0 2
Mycosphaerella_fijiensis_CIRAD86_ 2
Aureobasidium_pullulans_var._subglaciale_EXF-2481_v1.0 2
Paracoccidioides_brasiliensis_Pb18_ 4
Coccidioides_posadasii_RMSCC_3488_ 4
Coccidioides_immitis_RS_ 4
Ajellomyces_dermatitidis_SLH14081_ 2
Histoplasma_capsulatum_class_NAmI_strain_WU24_ 4
Microsporum_canis_CBS_113480_ 4
Trichophyton_equinum_CBS_127.97_ 3
Trichophyton_verrucosum_HKI_0517_ 3
Arthroderma_benhamiae_CBS_112371_ 4
Trichophyton_tonsurans_CBS_112818_ 3
Trichophyton_rubrum_CBS_118892_ 4
Uncinocarpus_reesii_1704_ 2
Aspergillus_zonatus_v1.0 4
Penicillium_chrysogenum_Wisconsin_54-1255_ 4
Penicillium_chrysogenum_v1.0 4
Aspergillus_acidus_v1.0 4
Aspergillus_fumigatus_Af293 3
Aspergillus_brasiliensis_v1.0 4
Aspergillus_nidulans_FGSC_A4_ 4
Aspergillus_sydowii_v1.0 4
Aspergillus_versicolor_v1.0 4
Aspergillus_glaucus 4
Aspergillus_carbonarius_ITEM_5010_ 4
Neosartorya_fischeri_NRRL_181_ 4
Aspergillus_terreus_NIH2624_ 4
Aspergillus_tubingensis_v1.0 5
Aspergillus_wentii_v1.0 5
Aspergillus_oryzae_RIB40_ 4
Aspergillus_niger_22 4
Aspergillus_niger_ATCC_1015_ 3
Aspergillus_flavus_NRRL3357_ 3
Aspergillus_clavatus_NRRL_1_ 3
Penicillium_marneffei_ATCC_18224_ 3
Tuber_melanosporum_Mel28_22 3
Tuber_melanosporum_Vittad_   (Perigord truffle)   3
Hansenula_polymorpha_v2.0 1
Dekkera_bruxellensis_CBS_2499_v2.0 2
Pichia_membranifaciensv1.0 1
Candida_tanzawaensis_NRRL_Y-17324__v1.0 2
Candida_dubliniensis_CD36_ 2
Candida_tropicalis_MYA-3404_ 2
Candida_parapsilosis_ 1
Candida_albicans_SC5314 1
Lodderomyces_elongisporus_NRRL_YB-4239_ 1
Babjeviella_inositovora_NRRL_Y-12698_v1.0 0
Pichia_stipitis_CBS_6054_ 2
Candida_guilliermondii_ATCC_6260_ 2
Hyphopichia_burtonii_NRRL_Y-1933_v1.0 2
Debaromyces_hansenii 2
Wickerhamomyces_anomalus 1
Pichia_pastoris_GS115_ 1
Hanseniaspora_valbyensis_NRRL_Y-1626_v1.1 1
Yarrowia_lipolytica_CLIB122 2
Candida_lusitaniae_ATCC_42720_ 1
Metschnikowia_bicuspidata_NRRL_YB-4993_v1.0 1
Vanderwaltozyma_polyspora_DSM_70294_ 1
Candida_glabrata_CBS138 1
Kluyveromyces_thermotolerans_CBS_6340 0
Lachancea_kluyveri_ 1
Kluyveromyces_waltii 0
Ashbya_gossypii_ATCC_10895_ 0
Zygosaccharomyces_rouxii_ 1
Saccharomyces_mikatae_MIT 1
Saccharomyces_paradoxus_MIT 1
Saccharomyces_cerevisiae_76   (Baker's yeast)   1
Saccharomyces_bayanus_MIT 1
Kluyveromyces_lactis 0
Schizosaccharomyces_cryophilus_OY26_22 4
Schizosaccharomyces_octosporus_yFS286_ 4
Schizosaccharomyces_japonicus_yFS275_ 4
Schizosaccharomyces_pombe   (Fission yeast)   4
Catenaria_anguillulae_PL171_v1.0 4
Allomyces_macrogynus_ATCC_38327_ 5
Spizellomyces_punctatus_DAOM_BR117_ 4
Dictyostelium_discoideum 7
Dictyostelium_purpureum_ 6
Entamoeba_dispar_1.2 8
Entamoeba_invadens_1.2 8
Entamoeba_histolytica_1 7
Selaginella_moellendorffii_ 13
Pinus_taeda   (Loblolly pine)   17
Picea_abies   (Norway spruce)   10
Eucalyptus_grandis_v201   (Rose gum)   23
Theobroma_cacao_B97-61/B2_v1   (Cacao)   11
Gossypium_raimondii_v221 51
Citrus_clementina_v165 22
Citrus_sinensis_v154   (Sweet orange)   31
Thellungiella_halophila_v173 15
Brassica_rapa_Chiifu-401_1.2   (Field mustard)   16
Capsella_rubella_v183 18
Arabidopsis_lyrata_   (Lyrate rockcress)   17
Arabidopsis_thaliana_10   (Thale cress)   27
Carica_papaya_   (Papaya)   6
Medicago_truncatula_   (Barrel medic)   41
Phaseolus_vulgaris_v186   (French bean)   12
Glycine_max_v109   (Soybean)   33
Cucumis_sativus_v122   (Cucumber)   25
Fragaria_vesca_   (Wild strawberry)   12
Malus_domestica_v196   (Apple)   37
Prunus_persica_v139   (Peach)   13
Linum_usitatissimum_v200   (Flax)   18
Manihot_esculenta_v147   (Cassava)   11
Populus_trichocarpa_v156   (Black cottonwood)   23
Vitis_vinifera_   (Wine grape)   11
Mimulus_guttatus_v140   (Spotted monkey flower)   14
Solanum_lycopersicum_v.2.3   (Tomato)   20
Solanum_tuberosum_   (Potato)   16
Actinidia_chinensis_Hongyang_ 17
Aquilegia_coerulea_v195 35
Triticum_urartu_22 8
Triticum_aestivum_22   (Bread wheat)   20
Aegilops_tauschii_22 5
Brachypodium_distachyon_   (Stiff brome)   7
Oryza_barthii_22   (African wild rice)   18
Oryza_meridionalis_22 14
Oryza_glumaepatula_22 11
Oryza_glaberrima   (African rice)   12
Oryza_punctata_22 9
Oryza_nivara_22 24
Oryza_brachyantha_22   (Malo sina)   14
Oryza_sativa_ssp._japonica_5.0   (Japanese rice)   30
Oryza_sativa_v193   (Rice)   29
Phyllostachys_heterocyclavar._pubescens   (Kikko-chiku)   14
Panicum_virgatum_v202   (Switchgrass)   21
Setaria_italica_v164   (Foxtail millet)   18
Zea_mays_subsp._mays_   (Maize)   16
Zea_mays_v181   (Maize)   16
Sorghum_bicolor_   (Sorghum)   8
Musa_balbisiana   (Balbis banana)   9
Musa_acuminata_22   (Wild Malaysian banana)   13
Amborella_trichopoda_22 9
Physcomitrella_patens 8
Coccomyxa_subellipsoidea_sp._C-169_v2 6
Asterochloris_sp._Cgr/DA1pho_v1.0 5
Chlorella_variabilis_sp._NC64A_ 5
Chlorella_vulgaris_ 6
Volvox_carteri_f._nagariensis_ 7
Volvox_carteri_v199 9
Chlamydomonas_reinhardtii_4.0 8
Ostreococcus_sp._RCC809_ 1
Ostreococcus_lucimarinus_CCE9901_ 5
Ostreococcus_tauri_ 2
Bathycoccus_prasinos_ 2
Micromonas_sp._RCC299_ 4
Micromonas_pusilla_CCMP1545_v3.0 6
Cyanidioschyzon_merolae_strain_10D_22 2
Cyanidioschyzon_merolae 2
Porphyridium_purpureum_02_2012 7
Thecamonas_trahens_ATCC_50062_ 6
Bigelowiella_natans_CCMP2755_22 18
Giardia_lamblia_2.3 4
Cyanophora_paradoxa_ 7
Leishmania_mexicana_2.4 3
Leishmania_major_strain_Friedlin_ 3
Leishmania_infantum_JPCM5_2.4 3
Leishmania_braziliensis_MHOM/BR/75/M2904_2.4 2
Trypanosoma_vivax_ 3
Trypanosoma_cruzi_strain_CL_Brener 4
Trypanosoma_congolense_2.4 3
Trypanosoma_brucei_gambiense_v4.1 3
Trypanosoma_brucei_TREU927_v4.1 3
Ectocarpus_siliculosus 10
Aureococcus_anophagefferens_ 2
Albugo_laibachii_22 6
Pythium_iwayamai_DAOM_BR242034_22 9
Pythium_arrhenomanes_ATCC_12531_22 11
Pythium_ultimum_v1.7-2 7
Pythium_aphanidermatum_DAOM_BR444_22 10
Pythium_irregulare_DAOM_BR486_22 10
Pythium_vexans_DAOM_BR484_22 8
Phytophthora_ramorum_1.1   (Sudden oak death agent)   6
Phytophthora_sojae_1.1 6
Phytophthora_infestans_T30-4_ 12
Phytophthora_capsici_ 9
Hyaloperonospora_arabidopsidis_22 11
Phaeodactylum_tricornutumCCAP_1055/1 5
Fragilariopsis_cylindrus 8
Thalassiosira_pseudonana_CCMP1335 2
Perkinsus_marinus_ATCC_50983_ 10
Paramecium_tetraurelia_ 15
Tetrahymena_thermophila_SB210_1_ 6
Ichthyophthirius_multifiliis_strain_G5_ 4
Cryptosporidium_hominis 3
Cryptosporidium_muris 3
Cryptosporidium_parvum_Iowa_II 3
Neospora_caninum 6
Toxoplasma_gondii_VEG 3
Toxoplasma_gondii_ME49 3
Toxoplasma_gondii_GT1 3
Babesia_bovis_T2Bo_ 6
Theileria_parva__ 5
Theileria_annulata 3
Plasmodium_falciparum_3D7_ 4
Plasmodium_vivax_SaI-1_7.0 5
Plasmodium_knowlesi_strain_H_ 5
Plasmodium_yoelii_ssp._yoelii_1_ 4
Plasmodium_chabaudi_ 5
Plasmodium_berghei_ANKA_ 5
Symbiodinium_minutum_clade_B1_v1.2 27
Naegleria_gruberi_ 2
Trichomonas_vaginalis_ 74
Guillardia_theta_CCMP2712_v1.0_ 10
Emiliania_huxleyi_CCMP1516_ 22
Conexibacter_woesei_DSM_14684 1
Nakamurella_multipartita_DSM_44233 1
Streptomyces_sp._SirexAA-E 1
Ruminococcus_albus_7 3
Flavobacterium_indicum_GPTSA100-9 1
Parachlamydia_acanthamoebae_UV-7 0
Acidovorax_citrulli_AAC00-1 1
Acidovorax_avenae_subsp._avenae_ATCC_19860 1

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Strains
Genome     Number
Xenopus_(Silurana)_tropicalis_v7.1_(annotation_v7.2)   (Tropical clawed frog)   36
Drosophila_melanogaster_FlyBase_5.12_(FlyBase)   (Fruit fly)   14
Anopheles_gambiae_VectorBase_AgamP3.6__(VectorBase)   (African malaria mosquito)   6
Ascaris_suum_Victoria/Ghent_   (Pig roundworm)   4
Caenorhabditis_elegans_WormBase_WS218__(WormBase)   (Roundworm)   7
Cryptococcus_neoformans_var._grubii_H99_ 1
Cryptococcus_neoformans_B-3501A_ 1
Cryptococcus_neoformans_JEC21_ 1
Paracoccidioides_brasiliensis_Pb01_ 2
Paracoccidioides_brasiliensis_Pb03_ 3
Coccidioides_posadasii_str._Silveira_ 4
Coccidioides_immitis_RMSCC_3703_ 4
Coccidioides_immitis_RMSCC_2394_ 4
Coccidioides_immitis_H538.4_ 4
Ajellomyces_dermatitidis_ER-3_ 3
Histoplasma_capsulatum_H143 3
Histoplasma_capsulatum_H88 4
Histoplasma_capsulatum_G186AR 4
Aspergillus_fumigatus_A1163_ 3
Candida_albicans_WO-1_ 1
Saccharomyces_cerevisiae_UC5 0
Saccharomyces_cerevisiae_PW5 1
Saccharomyces_cerevisiae_FL100 1
Saccharomyces_cerevisiae_CLIB324 2
Saccharomyces_cerevisiae_CBS7960 1
Saccharomyces_cerevisiae_YJM269 1
Saccharomyces_cerevisiae_T7 1
Saccharomyces_cerevisiae_FostersB 0
Saccharomyces_cerevisiae_FostersO 1
Saccharomyces_cerevisiae_VL3 2
Saccharomyces_cerevisiae_Vin13 2
Saccharomyces_cerevisiae_LalvinQA23 2
Saccharomyces_cerevisiae_AWRI796 1
Saccharomyces_cerevisiae_Sigma1278b 1
Saccharomyces_cerevisiae_W303 1
Saccharomyces_cerevisiae_JAY291 1
Saccharomyces_cerevisiae_AWRI1631 0
Saccharomyces_cerevisiae_YPS163 0
Saccharomyces_cerevisiae_M22 1
Saccharomyces_cerevisiae_T73 1
Saccharomyces_cerevisiae_CLIB215 1
Saccharomyces_cerevisiae_Y10 0
Saccharomyces_cerevisiae_YJM789_ 1
Saccharomyces_cerevisiae_YJM789 1
Saccharomyces_cerevisiae_RM11-1a 1
Saccharomyces_cerevisiae_RM11-1a_ 1
Saccharomyces_cerevisiae_SGD_(SGD)   (Baker's yeast)   1
Schizosaccharomyces_pombe_972h-_ 4
Batrachochytrium_dendrobatidis_JEL423_ 4
Batrachochytrium_dendrobatidis_JAM81_ 2
Theobroma_cacao_Matina_1-6_v0.9   (Cacao)   10
Hordeum_vulgare_22   (Domesticated barley)   15
Oryza_sativa_ssp._Indica_(Subspecies)   (Long-grained rice)   13
Trypanosoma_brucei_Lister_427_v4.1 3
Neospora_caninum_Nc-Liverpool_6.2 6
Plasmodium_falciparum_HB3_ 3
Plasmodium_falciparum_Dd2_ 3

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Longest transcript per gene
Genome     Number
Homo_sapiens_69_37   (Human)   15
Pan_troglodytes_69_2.1.4   (Chimpanzee)   13
Gorilla_gorilla_69_3.1   (Western gorilla)   12
Pongo_abelii_69_2   (Sumatran orangutan)   10
Nomascus_leucogenys_69_1.0   (Northern white-cheeked gibbon)   13
Macaca_mulatta_69_1   (Rhesus monkey)   13
Callithrix_jacchus_69_3.2.1   (White-tufted-ear marmoset)   15
Otolemur_garnettii_69_3   (Small-eared galago)   11
Microcebus_murinus_69_1   (Gray mouse lemur)   6
Rattus_norvegicus_69_3.4   (Norway rat)   14
Mus_musculus_69_38   (House mouse)   12
Dipodomys_ordii_69_1   (Ord's kangaroo rat)   13
Ictidomys_tridecemlineatus_69_2   (Thirteen-lined ground squirrel)   11
Cavia_porcellus_69_3   (Domestic guinea pig)   15
Oryctolagus_cuniculus_69_2   (Rabbit)   9
Ochotona_princeps_69   (American pika)   9
Tupaia_belangeri_69   (Northern tree shrew)   9
Sus_scrofa_69_10.2   (Pig)   11
Bos_taurus_69_3.1   (Cattle)   13
Vicugna_pacos_69_1   (Alpaca)   4
Tursiops_truncatus_69_1   (Bottlenose dolphin)   11
Mustela_putorius_furo_69_1.0   (Domestic ferret)   13
Ailuropoda_melanoleuca_69_1   (Giant panda)   13
Canis_familiaris_69_3.1   (Dog)   13
Felis_catus_69   (Domestic cat)   9
Equus_caballus_69_2   (Horse)   13
Myotis_lucifugus_69_2.0   (Little brown bat)   11
Pteropus_vampyrus_69_1   (Large flying fox)   11
Sorex_araneus_69_1   (European shrew)   9
Erinaceus_europaeus_69   (Western European hedgehog)   6
Procavia_capensis_69_1   (Cape rock hyrax)   9
Loxodonta_africana_69_3   (African savanna elephant)   15
Echinops_telfairi_69   (Small Madagascar hedgehog)   10
Dasypus_novemcinctus_69_2   (Nine-banded armadillo)   11
Choloepus_hoffmanni_69_1   (Hoffmann's two-fingered sloth)   7
Macropus_eugenii_69_1.0   (Tammar wallaby)   13
Sarcophilus_harrisii_69_7.0   (Tasmanian devil)   15
Monodelphis_domestica_69_5   (Gray short-tailed opossum)   13
Ornithorhynchus_anatinus_69_5   (Platypus)   8
Petromyzon_marinus_69_7.0   (Sea lamprey)   7
Meleagris_gallopavo_69_2   (Turkey)   6
Gallus_gallus_69_2   (Chicken)   8
Taeniopygia_guttata_69_3.2.4   (Zebra finch)   10
Pelodiscus_sinensis_69_1.0   (Chinese soft-shelled turtle)   7
Anolis_carolinensis_69_2.0   (Green anole)   12
Xenopus_tropicalis_69_4.2   (Tropical clawed frog)   13
Latimeria_chalumnae_69_1   (Coelacanth)   12
Gadus_morhua_69_1   (Atlantic cod)   14
Tetraodon_nigroviridis_69_8   (Spotted green pufferfish)   14
Takifugu_rubripes_69_4   (Torafugu)   16
Gasterosteus_aculeatus_69_1   (Three-spined stickleback)   16
Oryzias_latipes_69_1   (Japanese medaka)   12
Xiphophorus_maculatus_69_4.4.2   (Southern platyfish)   16
Oreochromis_niloticus_69_1.0   (Nile tilapia)   16
Danio_rerio_69_9   (Zebrafish)   23
Ciona_savignyi_69_2.0   (Pacific transparent sea squirt)   9
Ciona_intestinalis_69   (Vase tunicate)   11
Drosophila_melanogaster_69_5   (Fruit fly)   10
Caenorhabditis_elegans_69_215   (Roundworm)   6
Saccharomyces_cerevisiae_69_4   (Baker's yeast)   1
Arabidopsis_thaliana_10   (Thale cress)   23

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Others
Genome     Number
Homo_sapiens_75_37_(old_version_GRC)   (Human)   159
Homo_sapiens__(NCBI_version)   (Human)   19
Mus_musculus_63_37__(longest_transcript_per_gene)_(Duplicate)   (House mouse)   11
Heliconius_numata__(Incomplete) 9
Loa_loa_v3.3_(Request)   (Eye worm)   5
Wuchereria_bancrofti_v1.0_(Request)   (Agent of lymphatic filariasis)   8
Brugia_malayi_v1.0_(Duplicate)   (Agent of lymphatic filariasis)   6
Moniliophthora_perniciosa_FA553__(Genome_survey) 1
Encephalitozoon_intestinalis__(endoparasite) 2
Encephalitozoon_cuniculi_(endoparasite) 1
Picea_sitchensis__(Incomplete)   (Sitka spruce)   5
Lotus_japonicus__(Early_assembly) 9
Malus_x_domestica_(Duplicate)   (Apple)   37
Ricinus_communis__(Early_assembly)   (Castor bean)   12
Nicotiana_benthamiana_0.4.4_(Early_draft) 20
Solanum_pimpinellifolium_A-1.0_(Early_draft)   (Currant tomato)   20
Solanum_lycopersicum_v2.3_(Early_assembly)   (Tomato)   20
Phoenix_dactylifera__(Early_draft)   (Date palm)   7
NCBI_plasmid_sequences_(Plasmids) 1
Protein_Data_Bank_(all_PDB_sequenc) 43
UniProt__viral_sequences_(Viral) 3
SCOP2_SCOPe_CATH_ECOD_(all_domain_sequ) 15
NCBI_viral_sequences_(Viral) 5
Protozoadb_2010_08_(Protozoadb) 280
STRING_v9.0.5_(STRING) 910
Uniprot_2018_03_genome 33156
NCBI_2017_08_genome 9952
TargetDB__(Targets) 34
PDB_chains_(SCOP_1.75)_(PDB) 0

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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.