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  Home > SCOP hierarchy > Domain combination - _gap_,56672

Domain combinations for _gap_,56672 superfamilies in groups of genomes

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

56672 - DNA/RNA polymerases

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)   3
Pan_troglodytes_76_2.1.4   (Chimpanzee)   1
Gorilla_gorilla_76_3.1   (Western gorilla)   5
Pongo_abelii_76_2   (Sumatran orangutan)   2
Nomascus_leucogenys_76_1.0   (Northern white-cheeked gibbon)   0
Papio_anubis_76   (Olive baboon)   1
Macaca_mulatta_76_1   (Rhesus monkey)   5
Callithrix_jacchus_76_3.2.1   (White-tufted-ear marmoset)   2
Otolemur_garnettii_76_3   (Small-eared galago)   1
Microcebus_murinus_76_1   (Gray mouse lemur)   3
Rattus_norvegicus_76_5.0   (Norway rat)   3
Mus_musculus_76_38   (House mouse)   2
Dipodomys_ordii_76_1   (Ord's kangaroo rat)   2
Ictidomys_tridecemlineatus_76_2   (Thirteen-lined ground squirrel)   1
Heterocephalus_glaber_v1.7-2   (Naked mole-rat)   1
Cavia_porcellus_76_3   (Domestic guinea pig)   1
Oryctolagus_cuniculus_76_2   (Rabbit)   1
Ochotona_princeps_76   (American pika)   1
Tupaia_belangeri_76   (Northern tree shrew)   1
Sus_scrofa_76_10.2   (Pig)   1
Bos_taurus_76_3.1   (Cattle)   1
Ovis_aries_76_3.1   (Sheep)   1
Vicugna_pacos_76_1   (Alpaca)   1
Tursiops_truncatus_76_1   (Bottlenose dolphin)   1
Mustela_putorius_furo_76_1.0   (Domestic ferret)   0
Ailuropoda_melanoleuca_76_1   (Giant panda)   1
Canis_familiaris_76_3.1   (Dog)   2
Felis_catus_76_6.2   (Domestic cat)   0
Equus_caballus_76_2   (Horse)   1
Myotis_lucifugus_76_2.0   (Little brown bat)   1
Pteropus_vampyrus_76_1   (Large flying fox)   1
Sorex_araneus_76_1   (European shrew)   1
Erinaceus_europaeus_76   (Western European hedgehog)   2
Procavia_capensis_76_1   (Cape rock hyrax)   1
Loxodonta_africana_76_3   (African savanna elephant)   1
Echinops_telfairi_76   (Small Madagascar hedgehog)   2
Dasypus_novemcinctus_76_2   (Nine-banded armadillo)   1
Choloepus_hoffmanni_76_1   (Hoffmann's two-fingered sloth)   1
Macropus_eugenii_76_1.0   (Tammar wallaby)   2
Sarcophilus_harrisii_76_7.0   (Tasmanian devil)   1
Monodelphis_domestica_76_5   (Gray short-tailed opossum)   1
Ornithorhynchus_anatinus_76_5   (Platypus)   1
Saccoglossus_kowalevskii_v3.0 4
Petromyzon_marinus_76_7.0   (Sea lamprey)   1
Meleagris_gallopavo_76_2   (Turkey)   1
Gallus_gallus_76_4   (Chicken)   2
Anas_platyrhynchos_76_1.0   (Mallard)   1
Taeniopygia_guttata_76_3.2.4   (Zebra finch)   1
Ficedula_albicollis_76_1.0   (Collared flycatcher)   1
Pelodiscus_sinensis_76_1.0   (Chinese soft-shelled turtle)   40
Anolis_carolinensis_76_2.0   (Green anole)   1
Xenopus_laevis_   (African clawed frog)   0
Xenopus_tropicalis_76_4.2   (Tropical clawed frog)   2
Latimeria_chalumnae_76_1   (Coelacanth)   4
Lepisosteus_oculatus_76   (Spotted gar)   5
Gadus_morhua_76_1   (Atlantic cod)   0
Tetraodon_nigroviridis_76_8   (Spotted green pufferfish)   1
Takifugu_rubripes_76_4   (Torafugu)   2
Gasterosteus_aculeatus_76_1   (Three-spined stickleback)   0
Oryzias_latipes_76_1   (Japanese medaka)   0
Xiphophorus_maculatus_76_4.4.2   (Southern platyfish)   1
Poecilia_formosa_76   (Amazon molly)   3
Oreochromis_niloticus_76_1.0   (Nile tilapia)   2
Astyanax_mexicanus_76   (Mexican tetra)   3
Danio_rerio_76_9   (Zebrafish)   2
Oikopleura_dioica 7
Ciona_savignyi_76_2.0   (Pacific transparent sea squirt)   0
Ciona_intestinalis_76   (Vase tunicate)   0
Strongylocentrotus_purpuratus_v3.1   (Purple sea urchin)   28
Adineta_vaga 0
Octopus_bimaculoides_280 6
Crassostrea_gigas_22   (Pacific oyster)   1
Lottia_gigantea_   (Owl limpet)   51
Helobdella_robusta_ 1
Capitella_sp._I_ 6
Danaus_plexippus_OGS1.0   (Monarch butterfly)   8
Heliconius_melpomene_   (Postman butterfly)   2
Bombyx_mori_   (Domestic silkworm)   30
Nasonia_vitripennis_   (Jewel wasp)   31
Apis_mellifera_38.2d_(Not_maintained)   (Honey bee)   0
Harpegnathos_saltator_v3.3   (Jerdon's jumping ant)   26
Linepithema_humile_v1.1   (Argentine ant)   2
Pogonomyrmex_barbatus_v1.2   (Red harvester ant)   2
Solenopsis_invicta_v.2.2.3   (Red fire ant)   2
Acromyrmex_echinatior_v3.8   (Panamanian leafcutter ant)   0
Atta_cephalotes_v1.1 2
Camponotus_floridanus_v3.3   (Florida carpenter ant)   7
Lucilia_cuprina   (Australian sheep blowfly)   1
Drosophila_grimshawi_1.3 0
Drosophila_willistoni_1.3 7
Drosophila_pseudoobscura_2.13 5
Drosophila_persimilis_1.3 0
Drosophila_suzukii 0
Drosophila_yakuba_1.3 3
Drosophila_simulans_1.3 3
Drosophila_sechellia_1.3 1
Drosophila_melanogaster_76_5   (Fruit fly)   0
Drosophila_erecta_1.3 1
Drosophila_ananassae_1.3 1
Drosophila_virilis_1.2 1
Drosophila_mojavensis_1.3 2
Aedes_aegypti_55_(Not_maintained)   (Yellow fever mosquito)   1
Culex_pipiens_quinquefasciatus_   (Southern house mosquito)   0
Anopheles_darlingi_22   (American malaria mosquito)   1
Anopheles_gambiae_49_3j   (African malaria mosquito)   1
Tribolium_castaneum_3.0   (Red flour beetle)   24
Pediculus_humanus_corporis__(Early_assembly)   (Human body louse)   3
Acyrthosiphon_pisum_   (Pea aphid)   13
Rhodnius_prolixus_22 2
Daphnia_pulex_   (Common water flea)   10
Strigamia_maritima_22 7
Sarcoptes_scabiei 1
Tetranychus_urticae_   (Two-spotted spider mite)   1
Ixodes_scapularis__(Preliminary)   (Black-legged tick)   1
Pristionchus_pacificus_ 10
Meloidogyne_incognita_   (Southern root-knot nematode)   8
Meloidogyne_hapla_ 10
Onchocerca_volvulus_22 3
Brugia_malayi_WS250   (Agent of lymphatic filariasis)   0
Caenorhabditis_japonica_ 22
Caenorhabditis_brenneri_ 6
Caenorhabditis_remanei_ 23
Caenorhabditis_elegans_76_235   (Roundworm)   0
Caenorhabditis_briggsae_2 8
Trichinella_spiralis_22 13
Hymenolepis_microstoma_ 5
Echinococcus_multilocularis_ 6
Echinococcus_granulosus_ 1
Taenia_solium_   (Pork tapeworm)   1
Schistosoma_mansoni_ 1
Mnemiopsis_leidyi   (Sea walnut)   17
Thelohanellus_kitauei 12
Acropora_digitifera_v1.0 60
Nematostella_vectensis_1.0   (Starlet sea anemone)   5
Hydra_vulgaris 23
Amphimedon_queenslandica 29
Trichoplax_adhaerens_ 1
Proterospongia_sp._ATCC_50818_ 1
Monosiga_brevicollis_ 6
Sphaeroforma_arctica_JP610_ 1
Capsaspora_owczarzaki_ATCC_30864_ 1
Conidiobolus_coronatus_NRRL28638_v1.0 0
Mortierella_verticillata_NRRL_6337_ 0
Phycomyces_blakesleeanus_ 2
Rhizopus_oryzae_RA_99-880_ 29
Mucor_circinelloides_ 0
Rhizomucor_miehei_CAU432_ 0
Malassezia_globosa_CBS_7966_ 0
Sporisorium_reilianum_22 0
Ustilago_maydis_ 6
Mixia_osmundae_IAM_14324_v1.0 0
Cronartium_quercuum_f._sp._fusiforme_G11_v1.0 2
Puccinia_graminis_f._sp._tritici_CRL_75-36-700-3_ 0
Melampsora_laricis-populina_ 10
Rhodotorula_graminis_WP1_v1.0 0
Sporobolomyces_roseus_IAM_13481_ 0
Microbotryum_violaceum_22 0
Wallemia_sebi_v1.0 0
Sphaerobolus_stellatus_v1.0 18
Piloderma_croceum_F_1598_v1.0 1
Serpula_lacrymans_var._lacrymans_S7.9_ 1
Coniophora_puteana 0
Hydnomerulius_pinastri_v2.0 0
Paxillus_rubicundulus_Ve08.2h10_v1.0 3
Pisolithus_microcarpus_441_v1.0 2
Pisolithus_tinctorius_Marx_270_v1.0 3
Scleroderma_citrinum_Foug_A_v1.0 5
Coprinopsis_cinerea_okayama7_130_v3 0
Pleurotus_ostreatus_   (Oyster mushroom)   1
Amanita_thiersii_Skay4041_v1.0 0
Amanita_muscaria_Koide_v1.0   (Fly agaric)   5
Galerina_marginata_v1.0 1
Hebeloma_cylindrosporum_h7_v2.0 1
Laccaria_bicolor_S238N-H82_ 3
Agaricus_bisporus_var._bisporus_ 4
Schizophyllum_commune_ 2
Stereum_hirsutum_FP-91666_SS1__v1.0 1
Heterobasidion_annosum_ 3
Gloeophyllum_trabeumv1.0 0
Punctularia_strigosozonata_v1.0 0
Sebacina_vermifera_MAFF_305830_v1.0 2
Fomitiporia_mediterranea_v1.0 0
Tulasnella_calospora_AL13/4D_v1.0 0
Postia_placenta_ 0
Wolfiporia_cocos_MD-104_SS10__v1.0 1
Fomitopsis_pinicolav1.0 0
Fomitopsis_pinicola_FP-58527_SS1_v3.0 0
Phanerochaete_chrysosporium_RP-78_2.1 4
Dichomitus_squalens 0
Trametes_versicolor_v1.0 0
Tremella_mesenterica_   (Witches' butter)   0
Daldinia_eschscholzii_EC12_v1.0 0
Apiospora_montagnei_NRRL_25634_v1.0 0
Magnaporthe_grisea_70-15_ 1
Podospora_anserina_ 0
Sporotrichum_thermophile_ATCC_42464_ 0
Thielavia_terrestris_NRRL_8126_ 0
Chaetomium_globosum_CBS_148.51_ 2
Neurospora_tetrasperma_ 0
Neurospora_discreta_FGSC_8579_ 0
Neurospora_crassa_OR74A_ 0
Cryphonectria_parasitica_   (Chestnut blight fungus)   0
Verticillium_albo-atrum_VaMs.102_ 0
Verticillium_dahliae_VdLs.17_ 0
Acremonium_alcalophilumv_1.0 0
Glomerella_graminicola_22 0
Fusarium_graminearum_ 1
Nectria_haematococca_mpVI_ 0
Fusarium_oxysporum_f._sp._lycopersici_4286_ 0
Fusarium_verticillioides_7600_ 0
Trichoderma_asperellum_CBS_433.97_v1.0 0
Trichoderma_atroviride_ 0
Trichoderma_citrinoviride_v1.0 0
Trichoderma_reesei_1.2 0
Trichoderma_virens_Gv29-8_ 0
Trichoderma_longibrachiatum_ATCC_18648_v1.0 0
Trichoderma_harzianum_CBS_226.95_v1.0 0
Amorphotheca_resinae_v1.0   (Creosote fungus)   0
Botrytis_cinerea_B05.10_ 2
Sclerotinia_sclerotiorum_ 0
Blumeria_graminis_22 1
Didymella_exigua_CBS_183.55_v1.0 0
Leptosphaeria_maculans_22 0
Setosphaeria_turcica_v1.0 0
Cochliobolus_miyabeanus_ATCC_44560_v1.0 1
Cochliobolus_victoriae_FI3_v1.0 0
Cochliobolus_carbonum_26-R-13_v1.0 0
Cochliobolus_heterostrophus_   (Southern corn leaf blight pathogen)   1
Alternaria_brassicicola_ 1
Cochliobolus_lunatus_m118_v2.0 1
Pyrenophora_teres_f._teres_22 2
Pyrenophora_tritici-repentis_ 1
Stagonospora_nodorum_ 1
Mycosphaerella_graminicola_IPO323_ 0
Zasmidium_cellare_ATCC_36951_v1.0 0
Dothistroma_septosporum 0
Septoria_musiva_v1.0 0
Mycosphaerella_fijiensis_CIRAD86_ 0
Aureobasidium_pullulans_var._subglaciale_EXF-2481_v1.0 0
Paracoccidioides_brasiliensis_Pb18_ 0
Coccidioides_posadasii_RMSCC_3488_ 0
Coccidioides_immitis_RS_ 0
Ajellomyces_dermatitidis_SLH14081_ 0
Histoplasma_capsulatum_class_NAmI_strain_WU24_ 0
Microsporum_canis_CBS_113480_ 0
Trichophyton_equinum_CBS_127.97_ 0
Trichophyton_verrucosum_HKI_0517_ 0
Arthroderma_benhamiae_CBS_112371_ 0
Trichophyton_tonsurans_CBS_112818_ 0
Trichophyton_rubrum_CBS_118892_ 0
Uncinocarpus_reesii_1704_ 0
Aspergillus_zonatus_v1.0 0
Penicillium_chrysogenum_Wisconsin_54-1255_ 1
Penicillium_chrysogenum_v1.0 0
Aspergillus_acidus_v1.0 0
Aspergillus_fumigatus_Af293 1
Aspergillus_brasiliensis_v1.0 0
Aspergillus_nidulans_FGSC_A4_ 0
Aspergillus_sydowii_v1.0 0
Aspergillus_versicolor_v1.0 0
Aspergillus_glaucus 0
Aspergillus_carbonarius_ITEM_5010_ 0
Neosartorya_fischeri_NRRL_181_ 1
Aspergillus_terreus_NIH2624_ 0
Aspergillus_tubingensis_v1.0 0
Aspergillus_wentii_v1.0 0
Aspergillus_oryzae_RIB40_ 0
Aspergillus_niger_22 0
Aspergillus_niger_ATCC_1015_ 0
Aspergillus_flavus_NRRL3357_ 0
Aspergillus_clavatus_NRRL_1_ 0
Penicillium_marneffei_ATCC_18224_ 3
Tuber_melanosporum_Mel28_22 0
Tuber_melanosporum_Vittad_   (Perigord truffle)   2
Hansenula_polymorpha_v2.0 0
Dekkera_bruxellensis_CBS_2499_v2.0 0
Pichia_membranifaciensv1.0 0
Candida_tanzawaensis_NRRL_Y-17324__v1.0 0
Candida_dubliniensis_CD36_ 4
Candida_tropicalis_MYA-3404_ 0
Candida_parapsilosis_ 1
Candida_albicans_SC5314 1
Lodderomyces_elongisporus_NRRL_YB-4239_ 2
Babjeviella_inositovora_NRRL_Y-12698_v1.0 0
Pichia_stipitis_CBS_6054_ 0
Candida_guilliermondii_ATCC_6260_ 1
Hyphopichia_burtonii_NRRL_Y-1933_v1.0 0
Debaromyces_hansenii 1
Wickerhamomyces_anomalus 0
Pichia_pastoris_GS115_ 1
Hanseniaspora_valbyensis_NRRL_Y-1626_v1.1 0
Yarrowia_lipolytica_CLIB122 2
Candida_lusitaniae_ATCC_42720_ 2
Metschnikowia_bicuspidata_NRRL_YB-4993_v1.0 0
Vanderwaltozyma_polyspora_DSM_70294_ 2
Candida_glabrata_CBS138 0
Kluyveromyces_thermotolerans_CBS_6340 0
Lachancea_kluyveri_ 0
Kluyveromyces_waltii 2
Ashbya_gossypii_ATCC_10895_ 2
Zygosaccharomyces_rouxii_ 1
Saccharomyces_mikatae_MIT 0
Saccharomyces_paradoxus_MIT 1
Saccharomyces_cerevisiae_76   (Baker's yeast)   0
Saccharomyces_bayanus_MIT 1
Kluyveromyces_lactis 1
Schizosaccharomyces_cryophilus_OY26_22 0
Schizosaccharomyces_octosporus_yFS286_ 0
Schizosaccharomyces_japonicus_yFS275_ 0
Schizosaccharomyces_pombe   (Fission yeast)   0
Catenaria_anguillulae_PL171_v1.0 0
Allomyces_macrogynus_ATCC_38327_ 1
Spizellomyces_punctatus_DAOM_BR117_ 1
Dictyostelium_discoideum 10
Dictyostelium_purpureum_ 1
Entamoeba_dispar_1.2 2
Entamoeba_histolytica_1 1
Selaginella_moellendorffii_ 0
Pinus_taeda   (Loblolly pine)   1
Eucalyptus_grandis_v201   (Rose gum)   0
Theobroma_cacao_B97-61/B2_v1   (Cacao)   298
Gossypium_raimondii_v221 2
Citrus_clementina_v165 3
Citrus_sinensis_v154   (Sweet orange)   6
Thellungiella_halophila_v173 1
Brassica_rapa_Chiifu-401_1.2   (Field mustard)   2
Capsella_rubella_v183 0
Arabidopsis_lyrata_   (Lyrate rockcress)   0
Arabidopsis_thaliana_10   (Thale cress)   1
Carica_papaya_   (Papaya)   2
Medicago_truncatula_   (Barrel medic)   6
Phaseolus_vulgaris_v186   (French bean)   1
Glycine_max_v109   (Soybean)   19
Cucumis_sativus_v122   (Cucumber)   18
Fragaria_vesca_   (Wild strawberry)   8
Malus_domestica_v196   (Apple)   12
Prunus_persica_v139   (Peach)   9
Linum_usitatissimum_v200   (Flax)   2
Manihot_esculenta_v147   (Cassava)   4
Populus_trichocarpa_v156   (Black cottonwood)   9
Vitis_vinifera_   (Wine grape)   1
Mimulus_guttatus_v140   (Spotted monkey flower)   1
Solanum_lycopersicum_v.2.3   (Tomato)   3
Solanum_tuberosum_   (Potato)   9
Actinidia_chinensis_Hongyang_ 4
Aquilegia_coerulea_v195 1
Triticum_urartu_22 4
Triticum_aestivum_22   (Bread wheat)   1
Aegilops_tauschii_22 1
Brachypodium_distachyon_   (Stiff brome)   10
Oryza_barthii_22   (African wild rice)   5
Oryza_meridionalis_22 3
Oryza_glumaepatula_22 7
Oryza_glaberrima   (African rice)   5
Oryza_punctata_22 4
Oryza_nivara_22 5
Oryza_brachyantha_22   (Malo sina)   9
Oryza_sativa_ssp._japonica_5.0   (Japanese rice)   309
Oryza_sativa_v193   (Rice)   308
Phyllostachys_heterocyclavar._pubescens   (Kikko-chiku)   5
Panicum_virgatum_v202   (Switchgrass)   1
Setaria_italica_v164   (Foxtail millet)   1
Zea_mays_subsp._mays_   (Maize)   0
Zea_mays_v181   (Maize)   0
Sorghum_bicolor_   (Sorghum)   9
Musa_balbisiana   (Balbis banana)   173
Musa_acuminata_22   (Wild Malaysian banana)   3
Amborella_trichopoda_22 2
Physcomitrella_patens 1
Asterochloris_sp._Cgr/DA1pho_v1.0 0
Chlorella_variabilis_sp._NC64A_ 0
Chlorella_vulgaris_ 0
Volvox_carteri_f._nagariensis_ 0
Volvox_carteri_v199 0
Chlamydomonas_reinhardtii_4.0 2
Ostreococcus_sp._RCC809_ 0
Ostreococcus_lucimarinus_CCE9901_ 1
Ostreococcus_tauri_ 1
Bathycoccus_prasinos_ 0
Micromonas_sp._RCC299_ 1
Micromonas_pusilla_CCMP1545_v3.0 1
Cyanidioschyzon_merolae_strain_10D_22 1
Cyanidioschyzon_merolae 1
Porphyridium_purpureum_02_2012 0
Thecamonas_trahens_ATCC_50062_ 1
Bigelowiella_natans_CCMP2755_22 17
Giardia_lamblia_2.3 3
Cyanophora_paradoxa_ 1
Leishmania_mexicana_2.4 3
Leishmania_major_strain_Friedlin_ 3
Leishmania_infantum_JPCM5_2.4 3
Leishmania_braziliensis_MHOM/BR/75/M2904_2.4 12
Trypanosoma_vivax_ 6
Trypanosoma_cruzi_strain_CL_Brener 4
Trypanosoma_congolense_2.4 8
Trypanosoma_brucei_gambiense_v4.1 3
Trypanosoma_brucei_TREU927_v4.1 3
Ectocarpus_siliculosus 1
Aureococcus_anophagefferens_ 0
Albugo_laibachii_22 18
Pythium_iwayamai_DAOM_BR242034_22 1
Pythium_arrhenomanes_ATCC_12531_22 5
Pythium_ultimum_v1.7-2 3
Pythium_aphanidermatum_DAOM_BR444_22 0
Pythium_irregulare_DAOM_BR486_22 0
Pythium_vexans_DAOM_BR484_22 0
Phytophthora_ramorum_1.1   (Sudden oak death agent)   80
Phytophthora_sojae_1.1 114
Phytophthora_infestans_T30-4_ 13
Phytophthora_capsici_ 17
Hyaloperonospora_arabidopsidis_22 1
Phaeodactylum_tricornutumCCAP_1055/1 0
Fragilariopsis_cylindrus 3
Thalassiosira_pseudonana_CCMP1335 0
Perkinsus_marinus_ATCC_50983_ 27
Paramecium_tetraurelia_ 0
Tetrahymena_thermophila_SB210_1_ 0
Ichthyophthirius_multifiliis_strain_G5_ 0
Cryptosporidium_muris 0
Cryptosporidium_parvum_Iowa_II 0
Neospora_caninum 1
Toxoplasma_gondii_VEG 1
Toxoplasma_gondii_ME49 1
Toxoplasma_gondii_GT1 1
Babesia_bovis_T2Bo_ 0
Theileria_parva__ 0
Theileria_annulata 0
Plasmodium_falciparum_3D7_ 1
Plasmodium_vivax_SaI-1_7.0 1
Plasmodium_knowlesi_strain_H_ 1
Plasmodium_yoelii_ssp._yoelii_1_ 2
Plasmodium_chabaudi_ 1
Plasmodium_berghei_ANKA_ 1
Symbiodinium_minutum_clade_B1_v1.2 112
Naegleria_gruberi_ 0
Trichomonas_vaginalis_ 506
Guillardia_theta_CCMP2712_v1.0_ 1
Emiliania_huxleyi_CCMP1516_ 1
Halothece_sp._PCC_7418 0
Rivularia_sp._PCC_7116 1
Slackia_heliotrinireducens_DSM_20476 0
Coriobacterium_glomerans_PW2 0
Ilumatobacter_coccineus 1
Kineococcus_radiotolerans_SRS30216 1
Frankia_sp._EAN1pec 2
Frankia_alni_ACN14a 1
Actinoplanes_sp._N902-109 1
Rhodococcus_erythropolis_PR4 0
Corynebacterium_resistens_DSM_45100 1
Corynebacterium_ulcerans_0102 1
Brachybacterium_faecium_DSM_4810 1
Rothia_mucilaginosa_DY-18 1
Rothia_dentocariosa_ATCC_17931 1
Dehalococcoides_ethenogenes_195 1
Herpetosiphon_aurantiacus_DSM_785 1
Acidaminococcus_intestini_RyC-MR95 2
Acidaminococcus_fermentans_DSM_20731 1
Clostridiales_genomosp._BVAB3_str._UPII9-5 0
Clostridium_cellulolyticum_H10 1
Ethanoligenens_harbinense_YUAN-3 1
Oscillibacter_valericigenes_Sjm18-20 2
butyrate-producing_bacterium_SS3/4 1
butyrate-producing_bacterium_SM4/1 1
Clostridium_kluyveri_DSM_555 1
Clostridium_cellulovorans_743B 1
Tepidanaerobacter_acetatoxydans_Re1 1
Enterococcus_sp._7L76 1
Enterococcus_faecium_Aus0004 1
Lactobacillus_gasseri_ATCC_33323 1
Lactobacillus_delbrueckii_subsp._bulgaricus_ATCC_BAA-365 0
Streptococcus_agalactiae_A909 1
Bacillus_selenitireducens_MLS10 1
Saprospira_grandis_str._Lewin 1
Porphyromonas_gingivalis_ATCC_33277 1
Pirellula_staleyi_DSM_6068 0
Leptospirillum_ferrooxidans_C2-3 1
Leptotrichia_buccalis_C-1013-b 0
Acidithiobacillus_caldus_SM-1 1
Desulfovibrio_magneticus_RS-1 0
Desulfovibrio_vulgaris_subsp._vulgaris_DP4 0
Desulfovibrio_salexigens_DSM_2638 0
Desulfovibrio_desulfuricans_subsp._desulfuricans_str._ATCC_27774 0
Delftia_acidovorans_SPH-1 1
Candidatus_Puniceispirillum_marinum_IMCC1322 0
Azorhizobium_caulinodans_ORS_571 0
Sinorhizobium_meliloti_AK83 1
Agrobacterium_tumefaciens_str._C58 0
Mesorhizobium_loti_MAFF303099 0
Vibrio_furnissii_NCTC_11218 2
Vibrio_vulnificus_MO6-24/O 1
Marinomonas_mediterranea_MMB-1 0
Xanthomonas_axonopodis_pv._citri_str._306 1
Escherichia_coli_'BL21-Gold(DE3)pLysS_AG' 0
Fervidicoccus_fontis_Kam940 1
Thermogladius_cellulolyticus_1633 1
Aeropyrum_pernix_K1 1
Thermosphaera_aggregans_DSM_11486 1
Staphylothermus_hellenicus_DSM_12710 1
Staphylothermus_marinus_F1 1
Metallosphaera_cuprina_Ar-4 1
Metallosphaera_sedula_DSM_5348 1
Acidianus_hospitalis_W1 1
Sulfolobus_islandicus_Y.N.15.51 1
Sulfolobus_solfataricus_P2 1
halophilic_archaeon_DL31 2
Methanocella_arvoryzae_MRE50 0
Methanococcoides_burtonii_DSM_6242 2
Methanosphaerula_palustris_E1-9c 1
Thermoplasma_volcanium_GSS1 1
Thermoplasma_acidophilum_DSM_1728 1
Salinarchaeum_sp._Harcht-Bsk1 1
Natrinema_sp._J7-2 1
Haloferax_volcanii_DS2 1
Halorhabdus_utahensis_DSM_12940 1
Haloarcula_marismortui_ATCC_43049 1
Halobacterium_salinarum_R1 3
Halobacterium_sp._NRC-1 1
Aciduliprofundum_boonei_T469 0

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Strains
Genome     Number
Xenopus_(Silurana)_tropicalis_v7.1_(annotation_v7.2)   (Tropical clawed frog)   45
Drosophila_melanogaster_FlyBase_5.12_(FlyBase)   (Fruit fly)   0
Anopheles_gambiae_VectorBase_AgamP3.6__(VectorBase)   (African malaria mosquito)   0
Ascaris_suum_Victoria/Ghent_   (Pig roundworm)   1
Caenorhabditis_elegans_WormBase_WS218__(WormBase)   (Roundworm)   0
Cryptococcus_neoformans_var._grubii_H99_ 0
Cryptococcus_neoformans_B-3501A_ 3
Cryptococcus_neoformans_JEC21_ 1
Paracoccidioides_brasiliensis_Pb01_ 0
Paracoccidioides_brasiliensis_Pb03_ 0
Coccidioides_posadasii_str._Silveira_ 0
Coccidioides_immitis_RMSCC_3703_ 1
Coccidioides_immitis_RMSCC_2394_ 0
Coccidioides_immitis_H538.4_ 0
Ajellomyces_dermatitidis_ER-3_ 0
Histoplasma_capsulatum_H143 0
Histoplasma_capsulatum_H88 0
Histoplasma_capsulatum_G186AR 0
Aspergillus_fumigatus_A1163_ 1
Candida_albicans_WO-1_ 1
Saccharomyces_cerevisiae_UC5 0
Saccharomyces_cerevisiae_PW5 0
Saccharomyces_cerevisiae_FL100 0
Saccharomyces_cerevisiae_CLIB324 0
Saccharomyces_cerevisiae_CBS7960 0
Saccharomyces_cerevisiae_YJM269 0
Saccharomyces_cerevisiae_T7 0
Saccharomyces_cerevisiae_FostersB 1
Saccharomyces_cerevisiae_VL3 1
Saccharomyces_cerevisiae_Vin13 1
Saccharomyces_cerevisiae_LalvinQA23 1
Saccharomyces_cerevisiae_AWRI796 0
Saccharomyces_cerevisiae_Sigma1278b 0
Saccharomyces_cerevisiae_W303 0
Saccharomyces_cerevisiae_JAY291 0
Saccharomyces_cerevisiae_YPS163 0
Saccharomyces_cerevisiae_CLIB215 0
Saccharomyces_cerevisiae_Y10 0
Saccharomyces_cerevisiae_YJM789_ 5
Saccharomyces_cerevisiae_YJM789 0
Saccharomyces_cerevisiae_RM11-1a 0
Saccharomyces_cerevisiae_RM11-1a_ 0
Saccharomyces_cerevisiae_SGD_(SGD)   (Baker's yeast)   0
Schizosaccharomyces_pombe_972h-_ 0
Batrachochytrium_dendrobatidis_JEL423_ 2
Batrachochytrium_dendrobatidis_JAM81_ 3
Theobroma_cacao_Matina_1-6_v0.9   (Cacao)   356
Hordeum_vulgare_22   (Domesticated barley)   1
Oryza_sativa_ssp._Indica_(Subspecies)   (Long-grained rice)   109
Trypanosoma_brucei_Lister_427_v4.1 3
Neospora_caninum_Nc-Liverpool_6.2 1
Plasmodium_falciparum_HB3_ 1
Plasmodium_falciparum_Dd2_ 1
Cyanothece_sp._PCC_7822 2
Stanieria_cyanosphaera_PCC_7437 1
Nocardiopsis_alba_ATCC_BAA-2165 1
Propionibacterium_acidipropionici_ATCC_4875 0
Corynebacterium_ulcerans_BR-AD22 1
Corynebacterium_ulcerans_809 1
Gardnerella_vaginalis_HMP9231 1
Eubacterium_siraeum_V10Sc8a 1
Clostridium_kluyveri_NBRC_12016 1
Clostridium_pasteurianum_BC1 1
Lactobacillus_reuteri_SD2112 1
Lactobacillus_delbrueckii_subsp._bulgaricus_ND02 0
Lactobacillus_delbrueckii_subsp._bulgaricus_ATCC_11842 0
Lactobacillus_delbrueckii_subsp._bulgaricus_2038 0
Streptococcus_constellatus_subsp._pharyngis_C1050 0
Streptococcus_constellatus_subsp._pharyngis_C818 0
Streptococcus_constellatus_subsp._pharyngis_C232 0
Streptococcus_equi_subsp._zooepidemicus_ATCC_35246 1
Streptococcus_dysgalactiae_subsp._equisimilis_AC-2713 2
Streptococcus_pyogenes_MGAS10394 1
Streptococcus_agalactiae_09mas018883 1
Streptococcus_agalactiae_GD201008-001 1
Listeria_monocytogenes_serotype_1/2b_str._SLCC2755 1
Bacillus_amyloliquefaciens_LL3 1
Bacillus_amyloliquefaciens_DSM_7 1
Bacillus_cereus_ATCC_10987 1
Staphylococcus_epidermidis_ATCC_12228 0
Porphyromonas_gingivalis_TDC60 0
Porphyromonas_gingivalis_W83 0
Desulfovibrio_vulgaris_RCH1 0
Desulfovibrio_vulgaris_str._Hildenborough 0
Burkholderia_thailandensis_MSMB121 1
Burkholderia_pseudomallei_1710b 1
Leisingera_methylohalidivorans_DSM_14336 0
Rhodopseudomonas_palustris_DX-1 0
Vibrio_cholerae_IEC224 1
Xanthomonas_citri_subsp._citri_Aw12879 1
Xanthomonas_axonopodis_Xac29-1 1
Escherichia_coli_BL21(DE3) 0
Escherichia_coli_BL21(DE3) 0
Escherichia_coli_ETEC_H10407 1
Pseudomonas_putida_KT2440 0
Caldisphaera_lagunensis_DSM_15908 1
Aeropyrum_camini_SY1_=_JCM_12091 1
Sulfolobus_islandicus_LAL14/1 1
Sulfolobus_islandicus_REY15A 1
Sulfolobus_islandicus_HVE10/4 1
Sulfolobus_islandicus_Y.G.57.14 1
Sulfolobus_islandicus_L.S.2.15 1
Sulfolobus_islandicus_M.16.27 1
Sulfolobus_islandicus_M.14.25 1
Sulfolobus_islandicus_M.16.4 1
Sulfolobus_islandicus_L.D.8.5 1
Sulfolobus_solfataricus_98/2 1
Sulfolobus_acidocaldarius_SUSAZ 1
Sulfolobus_acidocaldarius_Ron12/I 1
Sulfolobus_acidocaldarius_N8 1
Methanolobus_psychrophilus_R15 2
Ferroplasma_acidarmanus_fer1 1
Halovivax_ruber_XH-70 2
Natrinema_pellirubrum_DSM_15624 1
Halorhabdus_tiamatea_SARL4B 2

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Longest transcript per gene
Genome     Number
Homo_sapiens_69_37   (Human)   1
Pan_troglodytes_69_2.1.4   (Chimpanzee)   1
Gorilla_gorilla_69_3.1   (Western gorilla)   3
Pongo_abelii_69_2   (Sumatran orangutan)   2
Nomascus_leucogenys_69_1.0   (Northern white-cheeked gibbon)   0
Macaca_mulatta_69_1   (Rhesus monkey)   1
Callithrix_jacchus_69_3.2.1   (White-tufted-ear marmoset)   1
Otolemur_garnettii_69_3   (Small-eared galago)   1
Microcebus_murinus_69_1   (Gray mouse lemur)   3
Rattus_norvegicus_69_3.4   (Norway rat)   2
Mus_musculus_69_38   (House mouse)   1
Dipodomys_ordii_69_1   (Ord's kangaroo rat)   2
Ictidomys_tridecemlineatus_69_2   (Thirteen-lined ground squirrel)   1
Cavia_porcellus_69_3   (Domestic guinea pig)   1
Oryctolagus_cuniculus_69_2   (Rabbit)   1
Ochotona_princeps_69   (American pika)   1
Tupaia_belangeri_69   (Northern tree shrew)   1
Sus_scrofa_69_10.2   (Pig)   1
Bos_taurus_69_3.1   (Cattle)   1
Vicugna_pacos_69_1   (Alpaca)   1
Tursiops_truncatus_69_1   (Bottlenose dolphin)   1
Mustela_putorius_furo_69_1.0   (Domestic ferret)   0
Ailuropoda_melanoleuca_69_1   (Giant panda)   1
Canis_familiaris_69_3.1   (Dog)   1
Felis_catus_69   (Domestic cat)   1
Equus_caballus_69_2   (Horse)   1
Myotis_lucifugus_69_2.0   (Little brown bat)   1
Pteropus_vampyrus_69_1   (Large flying fox)   1
Sorex_araneus_69_1   (European shrew)   1
Erinaceus_europaeus_69   (Western European hedgehog)   2
Procavia_capensis_69_1   (Cape rock hyrax)   1
Loxodonta_africana_69_3   (African savanna elephant)   1
Echinops_telfairi_69   (Small Madagascar hedgehog)   2
Dasypus_novemcinctus_69_2   (Nine-banded armadillo)   1
Choloepus_hoffmanni_69_1   (Hoffmann's two-fingered sloth)   1
Macropus_eugenii_69_1.0   (Tammar wallaby)   2
Sarcophilus_harrisii_69_7.0   (Tasmanian devil)   1
Monodelphis_domestica_69_5   (Gray short-tailed opossum)   1
Ornithorhynchus_anatinus_69_5   (Platypus)   1
Petromyzon_marinus_69_7.0   (Sea lamprey)   1
Meleagris_gallopavo_69_2   (Turkey)   1
Gallus_gallus_69_2   (Chicken)   2
Taeniopygia_guttata_69_3.2.4   (Zebra finch)   1
Pelodiscus_sinensis_69_1.0   (Chinese soft-shelled turtle)   40
Anolis_carolinensis_69_2.0   (Green anole)   0
Xenopus_tropicalis_69_4.2   (Tropical clawed frog)   1
Latimeria_chalumnae_69_1   (Coelacanth)   4
Gadus_morhua_69_1   (Atlantic cod)   0
Tetraodon_nigroviridis_69_8   (Spotted green pufferfish)   1
Takifugu_rubripes_69_4   (Torafugu)   2
Gasterosteus_aculeatus_69_1   (Three-spined stickleback)   0
Oryzias_latipes_69_1   (Japanese medaka)   0
Xiphophorus_maculatus_69_4.4.2   (Southern platyfish)   1
Oreochromis_niloticus_69_1.0   (Nile tilapia)   2
Danio_rerio_69_9   (Zebrafish)   2
Ciona_savignyi_69_2.0   (Pacific transparent sea squirt)   0
Ciona_intestinalis_69   (Vase tunicate)   0
Drosophila_melanogaster_69_5   (Fruit fly)   0
Caenorhabditis_elegans_69_215   (Roundworm)   0
Saccharomyces_cerevisiae_69_4   (Baker's yeast)   0
Arabidopsis_thaliana_10   (Thale cress)   0

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Others
Genome     Number
Homo_sapiens_75_37_(old_version_GRC)   (Human)   3
Homo_sapiens__(NCBI_version)   (Human)   2
Mus_musculus_63_37__(longest_transcript_per_gene)_(Duplicate)   (House mouse)   1
Loa_loa_v3.3_(Request)   (Eye worm)   2
Wuchereria_bancrofti_v1.0_(Request)   (Agent of lymphatic filariasis)   1
Brugia_malayi_v1.0_(Duplicate)   (Agent of lymphatic filariasis)   8
Moniliophthora_perniciosa_FA553__(Genome_survey) 5
Encephalitozoon_intestinalis__(endoparasite) 1
Encephalitozoon_cuniculi_(endoparasite) 1
Lotus_japonicus__(Early_assembly) 5
Malus_x_domestica_(Duplicate)   (Apple)   12
Ricinus_communis__(Early_assembly)   (Castor bean)   1
Nicotiana_benthamiana_0.4.4_(Early_draft) 2
Solanum_pimpinellifolium_A-1.0_(Early_draft)   (Currant tomato)   2
Solanum_lycopersicum_v2.3_(Early_assembly)   (Tomato)   3
Phoenix_dactylifera__(Early_draft)   (Date palm)   10
NCBI_plasmid_sequences_(Plasmids) 14
SCOP2_SCOPe_CATH_ECOD_(all_domain_sequ) 87
STRING_v9.0.5_(STRING) 910
UniProt__viral_sequences_(Viral) 3644
NCBI_2017_08_genome 7331
Protozoadb_2010_08_(Protozoadb) 65
Uniprot_2018_03_genome 60144
TargetDB__(Targets) 8
PDB_chains_(SCOP_1.75)_(PDB) 0
Protein_Data_Bank_(all_PDB_sequenc) 45
NCBI_viral_sequences_(Viral) 267

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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.