SUPERFAMILY 1.75 HMM library and genome assignments server

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Domain combinations for 52425,48173,_gap_ superfamilies in groups of genomes

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

52425 - Cryptochrome/photolyase, N-terminal domain
48173 - Cryptochrome/photolyase FAD-binding domain

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.


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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)   2
Gorilla_gorilla_76_3.1   (Western gorilla)   3
Pongo_abelii_76_2   (Sumatran orangutan)   2
Nomascus_leucogenys_76_1.0   (Northern white-cheeked gibbon)   2
Papio_anubis_76   (Olive baboon)   2
Macaca_mulatta_76_1   (Rhesus monkey)   2
Callithrix_jacchus_76_3.2.1   (White-tufted-ear marmoset)   3
Otolemur_garnettii_76_3   (Small-eared galago)   1
Microcebus_murinus_76_1   (Gray mouse lemur)   0
Rattus_norvegicus_76_5.0   (Norway rat)   2
Mus_musculus_76_38   (House mouse)   3
Dipodomys_ordii_76_1   (Ord's kangaroo rat)   1
Ictidomys_tridecemlineatus_76_2   (Thirteen-lined ground squirrel)   2
Heterocephalus_glaber_v1.7-2   (Naked mole-rat)   1
Cavia_porcellus_76_3   (Domestic guinea pig)   2
Oryctolagus_cuniculus_76_2   (Rabbit)   2
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)   2
Tursiops_truncatus_76_1   (Bottlenose dolphin)   2
Mustela_putorius_furo_76_1.0   (Domestic ferret)   2
Ailuropoda_melanoleuca_76_1   (Giant panda)   2
Canis_familiaris_76_3.1   (Dog)   2
Felis_catus_76_6.2   (Domestic cat)   2
Equus_caballus_76_2   (Horse)   2
Myotis_lucifugus_76_2.0   (Little brown bat)   1
Pteropus_vampyrus_76_1   (Large flying fox)   2
Sorex_araneus_76_1   (European shrew)   2
Erinaceus_europaeus_76   (Western European hedgehog)   1
Procavia_capensis_76_1   (Cape rock hyrax)   2
Loxodonta_africana_76_3   (African savanna elephant)   4
Echinops_telfairi_76   (Small Madagascar hedgehog)   1
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)   1
Sarcophilus_harrisii_76_7.0   (Tasmanian devil)   2
Monodelphis_domestica_76_5   (Gray short-tailed opossum)   2
Ornithorhynchus_anatinus_76_5   (Platypus)   2
Meleagris_gallopavo_76_2   (Turkey)   3
Gallus_gallus_76_4   (Chicken)   3
Anas_platyrhynchos_76_1.0   (Mallard)   2
Taeniopygia_guttata_76_3.2.4   (Zebra finch)   3
Ficedula_albicollis_76_1.0   (Collared flycatcher)   2
Pelodiscus_sinensis_76_1.0   (Chinese soft-shelled turtle)   3
Anolis_carolinensis_76_2.0   (Green anole)   3
Xenopus_laevis_   (African clawed frog)   18
Xenopus_tropicalis_76_4.2   (Tropical clawed frog)   7
Latimeria_chalumnae_76_1   (Coelacanth)   4
Lepisosteus_oculatus_76   (Spotted gar)   9
Gadus_morhua_76_1   (Atlantic cod)   2
Tetraodon_nigroviridis_76_8   (Spotted green pufferfish)   3
Takifugu_rubripes_76_4   (Torafugu)   7
Gasterosteus_aculeatus_76_1   (Three-spined stickleback)   5
Oryzias_latipes_76_1   (Japanese medaka)   10
Xiphophorus_maculatus_76_4.4.2   (Southern platyfish)   5
Poecilia_formosa_76   (Amazon molly)   5
Oreochromis_niloticus_76_1.0   (Nile tilapia)   7
Astyanax_mexicanus_76   (Mexican tetra)   7
Danio_rerio_76_9   (Zebrafish)   10
Strongylocentrotus_purpuratus_v3.1   (Purple sea urchin)   2
Octopus_bimaculoides_280 3
Crassostrea_gigas_22   (Pacific oyster)   1
Lottia_gigantea_   (Owl limpet)   2
Capitella_sp._I_ 2
Danaus_plexippus_OGS1.0   (Monarch butterfly)   2
Heliconius_melpomene_   (Postman butterfly)   2
Bombyx_mori_   (Domestic silkworm)   1
Nasonia_vitripennis_   (Jewel wasp)   0
Linepithema_humile_v1.1   (Argentine ant)   1
Pogonomyrmex_barbatus_v1.2   (Red harvester ant)   1
Acromyrmex_echinatior_v3.8   (Panamanian leafcutter ant)   1
Lucilia_cuprina   (Australian sheep blowfly)   2
Drosophila_grimshawi_1.3 1
Drosophila_willistoni_1.3 2
Drosophila_pseudoobscura_2.13 1
Drosophila_suzukii 1
Drosophila_yakuba_1.3 2
Drosophila_simulans_1.3 2
Drosophila_sechellia_1.3 2
Drosophila_melanogaster_76_5   (Fruit fly)   3
Drosophila_erecta_1.3 2
Drosophila_ananassae_1.3 2
Drosophila_virilis_1.2 1
Drosophila_mojavensis_1.3 1
Aedes_aegypti_55_(Not_maintained)   (Yellow fever mosquito)   2
Culex_pipiens_quinquefasciatus_   (Southern house mosquito)   1
Anopheles_darlingi_22   (American malaria mosquito)   1
Anopheles_gambiae_49_3j   (African malaria mosquito)   3
Tribolium_castaneum_3.0   (Red flour beetle)   1
Acyrthosiphon_pisum_   (Pea aphid)   3
Daphnia_pulex_   (Common water flea)   3
Tetranychus_urticae_   (Two-spotted spider mite)   0
Nematostella_vectensis_1.0   (Starlet sea anemone)   2
Proterospongia_sp._ATCC_50818_ 2
Monosiga_brevicollis_ 1
Sphaeroforma_arctica_JP610_ 1
Stereum_hirsutum_FP-91666_SS1__v1.0 1
Fusarium_graminearum_ 1
Trichoderma_asperellum_CBS_433.97_v1.0 1
Trichoderma_longibrachiatum_ATCC_18648_v1.0 0
Cochliobolus_heterostrophus_   (Southern corn leaf blight pathogen)   1
Aspergillus_niger_22 1
Allomyces_macrogynus_ATCC_38327_ 1
Selaginella_moellendorffii_ 3
Picea_abies   (Norway spruce)   1
Eucalyptus_grandis_v201   (Rose gum)   3
Theobroma_cacao_B97-61/B2_v1   (Cacao)   3
Gossypium_raimondii_v221 16
Citrus_clementina_v165 5
Citrus_sinensis_v154   (Sweet orange)   6
Thellungiella_halophila_v173 4
Brassica_rapa_Chiifu-401_1.2   (Field mustard)   3
Capsella_rubella_v183 2
Arabidopsis_lyrata_   (Lyrate rockcress)   3
Arabidopsis_thaliana_10   (Thale cress)   4
Carica_papaya_   (Papaya)   3
Medicago_truncatula_   (Barrel medic)   7
Phaseolus_vulgaris_v186   (French bean)   8
Glycine_max_v109   (Soybean)   14
Cucumis_sativus_v122   (Cucumber)   2
Fragaria_vesca_   (Wild strawberry)   3
Malus_domestica_v196   (Apple)   5
Prunus_persica_v139   (Peach)   3
Linum_usitatissimum_v200   (Flax)   3
Manihot_esculenta_v147   (Cassava)   5
Populus_trichocarpa_v156   (Black cottonwood)   5
Vitis_vinifera_   (Wine grape)   3
Mimulus_guttatus_v140   (Spotted monkey flower)   2
Solanum_lycopersicum_v.2.3   (Tomato)   4
Solanum_tuberosum_   (Potato)   4
Actinidia_chinensis_Hongyang_ 3
Aquilegia_coerulea_v195 11
Triticum_urartu_22 3
Triticum_aestivum_22   (Bread wheat)   7
Aegilops_tauschii_22 2
Brachypodium_distachyon_   (Stiff brome)   8
Oryza_barthii_22   (African wild rice)   7
Oryza_meridionalis_22 4
Oryza_glumaepatula_22 7
Oryza_glaberrima   (African rice)   4
Oryza_punctata_22 4
Oryza_nivara_22 7
Oryza_brachyantha_22   (Malo sina)   2
Oryza_sativa_ssp._japonica_5.0   (Japanese rice)   11
Oryza_sativa_v193   (Rice)   11
Phyllostachys_heterocyclavar._pubescens   (Kikko-chiku)   3
Panicum_virgatum_v202   (Switchgrass)   13
Setaria_italica_v164   (Foxtail millet)   6
Zea_mays_subsp._mays_   (Maize)   8
Zea_mays_v181   (Maize)   9
Sorghum_bicolor_   (Sorghum)   2
Musa_balbisiana   (Balbis banana)   1
Musa_acuminata_22   (Wild Malaysian banana)   4
Amborella_trichopoda_22 2
Physcomitrella_patens 2
Coccomyxa_subellipsoidea_sp._C-169_v2 1
Asterochloris_sp._Cgr/DA1pho_v1.0 1
Chlorella_vulgaris_ 0
Volvox_carteri_f._nagariensis_ 2
Volvox_carteri_v199 2
Chlamydomonas_reinhardtii_4.0 2
Micromonas_sp._RCC299_ 1
Micromonas_pusilla_CCMP1545_v3.0 2
Cyanidioschyzon_merolae_strain_10D_22 1
Cyanidioschyzon_merolae 1
Porphyridium_purpureum_02_2012 1
Thecamonas_trahens_ATCC_50062_ 1
Bigelowiella_natans_CCMP2755_22 0
Trypanosoma_congolense_2.4 1
Trypanosoma_brucei_gambiense_v4.1 1
Trypanosoma_brucei_TREU927_v4.1 1
Ectocarpus_siliculosus 2
Pythium_arrhenomanes_ATCC_12531_22 0
Pythium_ultimum_v1.7-2 0
Pythium_aphanidermatum_DAOM_BR444_22 0
Pythium_irregulare_DAOM_BR486_22 0
Pythium_vexans_DAOM_BR484_22 0
Phytophthora_sojae_1.1 1
Phytophthora_infestans_T30-4_ 0
Phytophthora_capsici_ 0
Phaeodactylum_tricornutumCCAP_1055/1 2
Fragilariopsis_cylindrus 2
Thalassiosira_pseudonana_CCMP1335 2
Neospora_caninum 0
Toxoplasma_gondii_VEG 0
Toxoplasma_gondii_ME49 0
Toxoplasma_gondii_GT1 0
Plasmodium_chabaudi_ 0
Symbiodinium_minutum_clade_B1_v1.2 1
Emiliania_huxleyi_CCMP1516_ 0
Synechococcus_sp._CC9311 1
Prochlorococcus_marinus_str._MIT_9515 1
Rivularia_sp._PCC_7116 1
Nostoc_punctiforme_PCC_73102 1
Chloroflexus_sp._MS-G 1
Chloroflexus_sp._Y-400-fl 1
Chloroflexus_aurantiacus_J-10-fl 1
Deinococcus_proteolyticus_MRP 0
Bacillus_selenitireducens_MLS10 1
Fibrella_aestuarina 0
Spirosoma_linguale_DSM_74 0
Isosphaera_pallida_ATCC_43644 1
Thauera_sp._MZ1T 1
beta_proteobacterium_CB 1
Alicycliphilus_denitrificans_K601 1
Acidovorax_sp._KKS102 1
Methylotenera_versatilis_301 1
Hyphomonas_neptunium_ATCC_15444 1
Dinoroseobacter_shibae_DFL_12 1
Jannaschia_sp._CCS1 1
Acidiphilium_multivorum_AIU301 1
Candidatus_Puniceispirillum_marinum_IMCC1322 1
Vibrio_cholerae_O395 1
Psychromonas_ingrahamii_37 1
Pseudoalteromonas_sp._SM9913 1
Pseudoalteromonas_haloplanktis_TAC125 1
Marinobacter_adhaerens_HP15 1
Marinobacter_hydrocarbonoclasticus_ATCC_49840 1
Marinobacter_aquaeolei_VT8 1
Alteromonas_macleodii_str._'Deep_ecotype' 1
Halothiobacillus_neapolitanus_c2 1
Spiribacter_sp._UAH-SP71 1
Thioalkalimicrobium_cyclicum_ALM1 1
Halomicrobium_mukohataei_DSM_12286 1
Natronomonas_pharaonis_DSM_2160 0
Haloarcula_hispanica_ATCC_33960 1
Haloarcula_marismortui_ATCC_43049 1

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Strains
Genome     Number
Xenopus_(Silurana)_tropicalis_v7.1_(annotation_v7.2)   (Tropical clawed frog)   11
Drosophila_melanogaster_FlyBase_5.12_(FlyBase)   (Fruit fly)   3
Anopheles_gambiae_VectorBase_AgamP3.6__(VectorBase)   (African malaria mosquito)   2
Ascaris_suum_Victoria/Ghent_   (Pig roundworm)   1
Theobroma_cacao_Matina_1-6_v0.9   (Cacao)   2
Hordeum_vulgare_22   (Domesticated barley)   4
Oryza_sativa_ssp._Indica_(Subspecies)   (Long-grained rice)   4
Trypanosoma_brucei_Lister_427_v4.1 1
Neospora_caninum_Nc-Liverpool_6.2 0
Chamaesiphon_minutus_PCC_6605 1
Cyanobium_gracile_PCC_6307 1
Synechococcus_sp._CC9902 1
Synechococcus_sp._CC9605 1
Synechococcus_sp._WH_8102 1
Synechococcus_sp._WH_7803 1
Prochlorococcus_marinus_str._MIT_9301 1
Prochlorococcus_marinus_str._AS9601 1
Prochlorococcus_marinus_str._MIT_9215 1
Octadecabacter_antarcticus_307 1
Octadecabacter_arcticus_238 2
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
Alteromonas_macleodii_str._'Ionian_Sea_UM4b' 1
Alteromonas_macleodii_str._'Ionian_Sea_UM7' 1
Alteromonas_macleodii_str._'Aegean_Sea_MED64' 1
Alteromonas_macleodii_str._'English_Channel_615' 1
Alteromonas_macleodii_AltDE1 1
Spiribacter_salinus_M19-40 1
Natronomonas_moolapensis_8.8.11 1
Haloarcula_hispanica_N601 1

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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)   1
Pongo_abelii_69_2   (Sumatran orangutan)   2
Nomascus_leucogenys_69_1.0   (Northern white-cheeked gibbon)   1
Macaca_mulatta_69_1   (Rhesus monkey)   2
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)   0
Rattus_norvegicus_69_3.4   (Norway rat)   2
Mus_musculus_69_38   (House mouse)   2
Dipodomys_ordii_69_1   (Ord's kangaroo rat)   1
Ictidomys_tridecemlineatus_69_2   (Thirteen-lined ground squirrel)   2
Cavia_porcellus_69_3   (Domestic guinea pig)   2
Oryctolagus_cuniculus_69_2   (Rabbit)   2
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)   2
Tursiops_truncatus_69_1   (Bottlenose dolphin)   2
Mustela_putorius_furo_69_1.0   (Domestic ferret)   2
Ailuropoda_melanoleuca_69_1   (Giant panda)   2
Canis_familiaris_69_3.1   (Dog)   2
Felis_catus_69   (Domestic cat)   1
Equus_caballus_69_2   (Horse)   2
Myotis_lucifugus_69_2.0   (Little brown bat)   1
Pteropus_vampyrus_69_1   (Large flying fox)   2
Sorex_araneus_69_1   (European shrew)   2
Erinaceus_europaeus_69   (Western European hedgehog)   1
Procavia_capensis_69_1   (Cape rock hyrax)   2
Loxodonta_africana_69_3   (African savanna elephant)   2
Echinops_telfairi_69   (Small Madagascar hedgehog)   1
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)   1
Sarcophilus_harrisii_69_7.0   (Tasmanian devil)   2
Monodelphis_domestica_69_5   (Gray short-tailed opossum)   2
Ornithorhynchus_anatinus_69_5   (Platypus)   2
Meleagris_gallopavo_69_2   (Turkey)   3
Gallus_gallus_69_2   (Chicken)   3
Taeniopygia_guttata_69_3.2.4   (Zebra finch)   3
Pelodiscus_sinensis_69_1.0   (Chinese soft-shelled turtle)   3
Anolis_carolinensis_69_2.0   (Green anole)   2
Xenopus_tropicalis_69_4.2   (Tropical clawed frog)   5
Latimeria_chalumnae_69_1   (Coelacanth)   3
Gadus_morhua_69_1   (Atlantic cod)   2
Tetraodon_nigroviridis_69_8   (Spotted green pufferfish)   3
Takifugu_rubripes_69_4   (Torafugu)   3
Gasterosteus_aculeatus_69_1   (Three-spined stickleback)   5
Oryzias_latipes_69_1   (Japanese medaka)   6
Xiphophorus_maculatus_69_4.4.2   (Southern platyfish)   5
Oreochromis_niloticus_69_1.0   (Nile tilapia)   6
Danio_rerio_69_9   (Zebrafish)   6
Drosophila_melanogaster_69_5   (Fruit fly)   2
Arabidopsis_thaliana_10   (Thale cress)   3

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Others
Genome     Number
Homo_sapiens_75_37_(old_version_GRC)   (Human)   2
Homo_sapiens__(NCBI_version)   (Human)   2
Mus_musculus_63_37__(longest_transcript_per_gene)_(Duplicate)   (House mouse)   2
Lotus_japonicus__(Early_assembly) 2
Malus_x_domestica_(Duplicate)   (Apple)   5
Ricinus_communis__(Early_assembly)   (Castor bean)   3
Nicotiana_benthamiana_0.4.4_(Early_draft) 8
Solanum_pimpinellifolium_A-1.0_(Early_draft)   (Currant tomato)   4
Solanum_lycopersicum_v2.3_(Early_assembly)   (Tomato)   4
Phoenix_dactylifera__(Early_draft)   (Date palm)   1
NCBI_plasmid_sequences_(Plasmids) 2
STRING_v9.0.5_(STRING) 153
Uniprot_2018_03_genome 13314
NCBI_2017_08_genome 3100
Protozoadb_2010_08_(Protozoadb) 1
TargetDB__(Targets) 1
Protein_Data_Bank_(all_PDB_sequenc) 1

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