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Domain combinations for PHM/PNGase F superfamily in groups of genomes

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 domain combinations containing a PHM/PNGase F domain in that genome.

Complete genomes
Genome     Number   Proteins
Homo_sapiens_76_38   (Human)   18 10
Pan_troglodytes_76_2.1.4   (Chimpanzee)   6 3
Gorilla_gorilla_76_3.1   (Western gorilla)   10 5
Pongo_abelii_76_2   (Sumatran orangutan)   6 3
Nomascus_leucogenys_76_1.0   (Northern white-cheeked gibbon)   6 3
Papio_anubis_76   (Olive baboon)   5 3
Macaca_mulatta_76_1   (Rhesus monkey)   11 6
Callithrix_jacchus_76_3.2.1   (White-tufted-ear marmoset)   19 10
Otolemur_garnettii_76_3   (Small-eared galago)   8 4
Microcebus_murinus_76_1   (Gray mouse lemur)   8 4
Rattus_norvegicus_76_5.0   (Norway rat)   20 10
Mus_musculus_76_38   (House mouse)   13 7
Dipodomys_ordii_76_1   (Ord's kangaroo rat)   8 4
Ictidomys_tridecemlineatus_76_2   (Thirteen-lined ground squirrel)   6 3
Heterocephalus_glaber_v1.7-2   (Naked mole-rat)   8 4
Cavia_porcellus_76_3   (Domestic guinea pig)   8 4
Oryctolagus_cuniculus_76_2   (Rabbit)   7 4
Ochotona_princeps_76   (American pika)   8 4
Tupaia_belangeri_76   (Northern tree shrew)   9 4
Sus_scrofa_76_10.2   (Pig)   8 4
Bos_taurus_76_3.1   (Cattle)   12 6
Ovis_aries_76_3.1   (Sheep)   7 4
Vicugna_pacos_76_1   (Alpaca)   5 3
Tursiops_truncatus_76_1   (Bottlenose dolphin)   8 4
Mustela_putorius_furo_76_1.0   (Domestic ferret)   8 4
Ailuropoda_melanoleuca_76_1   (Giant panda)   8 4
Canis_familiaris_76_3.1   (Dog)   9 6
Felis_catus_76_6.2   (Domestic cat)   8 4
Equus_caballus_76_2   (Horse)   12 6
Myotis_lucifugus_76_2.0   (Little brown bat)   6 3
Pteropus_vampyrus_76_1   (Large flying fox)   9 4
Sorex_araneus_76_1   (European shrew)   4 2
Erinaceus_europaeus_76   (Western European hedgehog)   8 4
Procavia_capensis_76_1   (Cape rock hyrax)   9 4
Loxodonta_africana_76_3   (African savanna elephant)   10 5
Echinops_telfairi_76   (Small Madagascar hedgehog)   5 3
Dasypus_novemcinctus_76_2   (Nine-banded armadillo)   8 4
Choloepus_hoffmanni_76_1   (Hoffmann's two-fingered sloth)   7 3
Macropus_eugenii_76_1.0   (Tammar wallaby)   6 4
Sarcophilus_harrisii_76_7.0   (Tasmanian devil)   10 5
Monodelphis_domestica_76_5   (Gray short-tailed opossum)   10 5
Ornithorhynchus_anatinus_76_5   (Platypus)   7 4
Saccoglossus_kowalevskii_v3.0 24 13
Petromyzon_marinus_76_7.0   (Sea lamprey)   15 10
Meleagris_gallopavo_76_2   (Turkey)   6 3
Gallus_gallus_76_4   (Chicken)   8 4
Anas_platyrhynchos_76_1.0   (Mallard)   8 4
Taeniopygia_guttata_76_3.2.4   (Zebra finch)   6 3
Ficedula_albicollis_76_1.0   (Collared flycatcher)   8 4
Pelodiscus_sinensis_76_1.0   (Chinese soft-shelled turtle)   6 3
Anolis_carolinensis_76_2.0   (Green anole)   8 4
Xenopus_laevis_   (African clawed frog)   22 11
Xenopus_tropicalis_76_4.2   (Tropical clawed frog)   10 5
Latimeria_chalumnae_76_1   (Coelacanth)   9 5
Lepisosteus_oculatus_76   (Spotted gar)   10 6
Gadus_morhua_76_1   (Atlantic cod)   7 4
Tetraodon_nigroviridis_76_8   (Spotted green pufferfish)   7 4
Takifugu_rubripes_76_4   (Torafugu)   22 12
Gasterosteus_aculeatus_76_1   (Three-spined stickleback)   9 5
Oryzias_latipes_76_1   (Japanese medaka)   6 4
Xiphophorus_maculatus_76_4.4.2   (Southern platyfish)   7 4
Poecilia_formosa_76   (Amazon molly)   5 3
Oreochromis_niloticus_76_1.0   (Nile tilapia)   9 5
Astyanax_mexicanus_76   (Mexican tetra)   9 5
Danio_rerio_76_9   (Zebrafish)   16 9
Oikopleura_dioica 6 3
Ciona_savignyi_76_2.0   (Pacific transparent sea squirt)   8 6
Ciona_intestinalis_76   (Vase tunicate)   27 14
Strongylocentrotus_purpuratus_v3.1   (Purple sea urchin)   9 6
Adineta_vaga 54 35
Octopus_bimaculoides_280 16 9
Crassostrea_gigas_22   (Pacific oyster)   36 21
Lottia_gigantea_   (Owl limpet)   32 15
Helobdella_robusta_ 6 3
Capitella_sp._I_ 7 4
Danaus_plexippus_OGS1.0   (Monarch butterfly)   6 3
Heliconius_melpomene_   (Postman butterfly)   6 3
Bombyx_mori_   (Domestic silkworm)   5 3
Nasonia_vitripennis_   (Jewel wasp)   8 4
Apis_mellifera_38.2d_(Not_maintained)   (Honey bee)   17 9
Harpegnathos_saltator_v3.3   (Jerdon's jumping ant)   8 4
Linepithema_humile_v1.1   (Argentine ant)   8 4
Pogonomyrmex_barbatus_v1.2   (Red harvester ant)   8 4
Solenopsis_invicta_v.2.2.3   (Red fire ant)   8 4
Acromyrmex_echinatior_v3.8   (Panamanian leafcutter ant)   8 4
Atta_cephalotes_v1.1 8 5
Camponotus_floridanus_v3.3   (Florida carpenter ant)   8 4
Lucilia_cuprina   (Australian sheep blowfly)   8 4
Drosophila_grimshawi_1.3 8 4
Drosophila_willistoni_1.3 8 4
Drosophila_pseudoobscura_2.13 8 4
Drosophila_persimilis_1.3 8 4
Drosophila_suzukii 7 3
Drosophila_yakuba_1.3 10 5
Drosophila_simulans_1.3 6 4
Drosophila_sechellia_1.3 6 3
Drosophila_melanogaster_76_5   (Fruit fly)   14 7
Drosophila_erecta_1.3 9 4
Drosophila_ananassae_1.3 6 3
Drosophila_virilis_1.2 8 4
Drosophila_mojavensis_1.3 8 4
Megaselia_scalaris_22 2 2
Aedes_aegypti_55_(Not_maintained)   (Yellow fever mosquito)   12 6
Culex_pipiens_quinquefasciatus_   (Southern house mosquito)   12 6
Anopheles_darlingi_22   (American malaria mosquito)   8 4
Anopheles_gambiae_49_3j   (African malaria mosquito)   11 6
Tribolium_castaneum_3.0   (Red flour beetle)   8 4
Pediculus_humanus_corporis__(Early_assembly)   (Human body louse)   6 3
Acyrthosiphon_pisum_   (Pea aphid)   6 3
Rhodnius_prolixus_22 6 4
Daphnia_pulex_   (Common water flea)   15 8
Strigamia_maritima_22 19 8
Sarcoptes_scabiei 7 5
Tetranychus_urticae_   (Two-spotted spider mite)   6 3
Ixodes_scapularis__(Preliminary)   (Black-legged tick)   4 3
Pristionchus_pacificus_ 5 3
Meloidogyne_incognita_   (Southern root-knot nematode)   6 3
Meloidogyne_hapla_ 2 1
Onchocerca_volvulus_22 4 2
Brugia_malayi_WS250   (Agent of lymphatic filariasis)   5 3
Caenorhabditis_japonica_ 6 3
Caenorhabditis_brenneri_ 9 5
Caenorhabditis_remanei_ 6 3
Caenorhabditis_elegans_76_235   (Roundworm)   8 4
Caenorhabditis_briggsae_2 6 3
Trichinella_spiralis_22 4 2
Echinococcus_multilocularis_ 2 1
Echinococcus_granulosus_ 2 1
Taenia_solium_   (Pork tapeworm)   2 1
Schistosoma_mansoni_ 6 3
Mnemiopsis_leidyi   (Sea walnut)   5 3
Acropora_digitifera_v1.0 16 7
Nematostella_vectensis_1.0   (Starlet sea anemone)   19 11
Hydra_vulgaris 4 4
Amphimedon_queenslandica 25 14
Trichoplax_adhaerens_ 17 9
Proterospongia_sp._ATCC_50818_ 1 1
Monosiga_brevicollis_ 3 2
Sphaeroforma_arctica_JP610_ 1 1
Capsaspora_owczarzaki_ATCC_30864_ 2 1
Amorphotheca_resinae_v1.0   (Creosote fungus)   1 1
Mycosphaerella_graminicola_IPO323_ 1 1
Coccomyxa_subellipsoidea_sp._C-169_v2 2 1
Asterochloris_sp._Cgr/DA1pho_v1.0 3 2
Chlorella_variabilis_sp._NC64A_ 3 2
Chlorella_vulgaris_ 2 1
Volvox_carteri_f._nagariensis_ 5 3
Volvox_carteri_v199 5 3
Chlamydomonas_reinhardtii_4.0 9 5
Ostreococcus_sp._RCC809_ 4 2
Ostreococcus_lucimarinus_CCE9901_ 2 1
Ostreococcus_tauri_ 4 2
Bathycoccus_prasinos_ 4 2
Micromonas_sp._RCC299_ 3 2
Micromonas_pusilla_CCMP1545_v3.0 2 2
Thecamonas_trahens_ATCC_50062_ 4 2
Bigelowiella_natans_CCMP2755_22 2 2
Ectocarpus_siliculosus 11 6
Phaeodactylum_tricornutumCCAP_1055/1 2 1
Fragilariopsis_cylindrus 10 6
Symbiodinium_minutum_clade_B1_v1.2 6 6
Guillardia_theta_CCMP2712_v1.0_ 1 1
Emiliania_huxleyi_CCMP1516_ 2 1
Ilumatobacter_coccineus 2 1
Streptosporangium_roseum_DSM_43021 2 1
Nocardioides_sp._JS614 2 1
Actinoplanes_sp._N902-109 2 1
Actinoplanes_sp._SE50/110 2 1
Actinoplanes_missouriensis_431 2 1
Deinococcus_radiodurans_R1 1 1
Meiothermus_silvanus_DSM_9946 2 1
Haliscomenobacter_hydrossis_DSM_1100 2 1
Niastella_koreensis_GR20-10 1 1
Chitinophaga_pinensis_DSM_2588 5 3
Cyclobacterium_marinum_DSM_745 2 1
Fibrella_aestuarina 1 1
Leadbetterella_byssophila_DSM_17132 1 1
Spirosoma_linguale_DSM_74 3 2
Runella_slithyformis_DSM_19594 1 1
Parabacteroides_distasonis_ATCC_8503 1 1
Tannerella_forsythia_ATCC_43037 1 1
Bacteroides_helcogenes_P_36-108 2 2
Bacteroides_vulgatus_ATCC_8482 2 2
Bacteroides_fragilis_YCH46 1 1
Solitalea_canadensis_DSM_3403 2 1
Fluviicola_taffensis_DSM_16823 2 2
Owenweeksia_hongkongensis_DSM_17368 1 1
Maribacter_sp._HTCC2170 1 1
Ornithobacterium_rhinotracheale_DSM_15997 1 1
Capnocytophaga_canimorsus_Cc5 1 1
Weeksella_virosa_DSM_16922 1 1
Flavobacterium_indicum_GPTSA100-9 1 1
Isosphaera_pallida_ATCC_43644 8 4
Planctomyces_brasiliensis_DSM_5305 6 3
Planctomyces_limnophilus_DSM_3776 6 3
Rhodopirellula_baltica_SH_1 4 2
Pirellula_staleyi_DSM_6068 4 2
Candidatus_Solibacter_usitatus_Ellin6076 14 7
Granulicella_tundricola_MP5ACTX9 2 1
Candidatus_Koribacter_versatilis_Ellin345 2 1
Sorangium_cellulosum_'So_ce_56' 17 11
Stigmatella_aurantiaca_DW4/3-1 2 1
Phenylobacterium_zucineum_HLK1 2 1

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Strains
Genome     Number   Proteins
Xenopus_(Silurana)_tropicalis_v7.1_(annotation_v7.2)   (Tropical clawed frog)   6 3
Drosophila_melanogaster_FlyBase_5.12_(FlyBase)   (Fruit fly)   10 5
Anopheles_gambiae_VectorBase_AgamP3.6__(VectorBase)   (African malaria mosquito)   11 6
Ascaris_suum_Victoria/Ghent_   (Pig roundworm)   6 3
Caenorhabditis_elegans_WormBase_WS218__(WormBase)   (Roundworm)   8 4
Streptomyces_rapamycinicus_NRRL_5491 1 1
Actinoplanes_friuliensis_DSM_7358 2 1
Chthonomonas_calidirosea_T49 2 1
Echinicola_vietnamensis_DSM_17526 2 1
Emticicia_oligotrophica_DSM_17448 3 2
Bacteroides_fragilis_638R 1 1
Bacteroides_fragilis_NCTC_9343 1 1
Singulisphaera_acidiphila_DSM_18658 20 10
Sorangium_cellulosum_So0157-2 21 14
Glaciecola_psychrophila_170 2 1

Longest transcript per gene
Genome     Number   Proteins
Homo_sapiens_69_37   (Human)   6 3
Pan_troglodytes_69_2.1.4   (Chimpanzee)   6 3
Gorilla_gorilla_69_3.1   (Western gorilla)   8 4
Pongo_abelii_69_2   (Sumatran orangutan)   6 3
Nomascus_leucogenys_69_1.0   (Northern white-cheeked gibbon)   6 3
Macaca_mulatta_69_1   (Rhesus monkey)   6 3
Callithrix_jacchus_69_3.2.1   (White-tufted-ear marmoset)   8 4
Otolemur_garnettii_69_3   (Small-eared galago)   8 4
Microcebus_murinus_69_1   (Gray mouse lemur)   8 4
Rattus_norvegicus_69_3.4   (Norway rat)   8 4
Mus_musculus_69_38   (House mouse)   8 4
Dipodomys_ordii_69_1   (Ord's kangaroo rat)   8 4
Ictidomys_tridecemlineatus_69_2   (Thirteen-lined ground squirrel)   6 3
Cavia_porcellus_69_3   (Domestic guinea pig)   8 4
Oryctolagus_cuniculus_69_2   (Rabbit)   7 4
Ochotona_princeps_69   (American pika)   8 4
Tupaia_belangeri_69   (Northern tree shrew)   9 4
Sus_scrofa_69_10.2   (Pig)   8 4
Bos_taurus_69_3.1   (Cattle)   8 4
Vicugna_pacos_69_1   (Alpaca)   5 3
Tursiops_truncatus_69_1   (Bottlenose dolphin)   8 4
Mustela_putorius_furo_69_1.0   (Domestic ferret)   8 4
Ailuropoda_melanoleuca_69_1   (Giant panda)   8 4
Canis_familiaris_69_3.1   (Dog)   8 5
Felis_catus_69   (Domestic cat)   5 4
Equus_caballus_69_2   (Horse)   8 4
Myotis_lucifugus_69_2.0   (Little brown bat)   6 3
Pteropus_vampyrus_69_1   (Large flying fox)   9 4
Sorex_araneus_69_1   (European shrew)   4 2
Erinaceus_europaeus_69   (Western European hedgehog)   8 4
Procavia_capensis_69_1   (Cape rock hyrax)   9 4
Loxodonta_africana_69_3   (African savanna elephant)   8 4
Echinops_telfairi_69   (Small Madagascar hedgehog)   5 3
Dasypus_novemcinctus_69_2   (Nine-banded armadillo)   3 2
Choloepus_hoffmanni_69_1   (Hoffmann's two-fingered sloth)   7 3
Macropus_eugenii_69_1.0   (Tammar wallaby)   6 4
Sarcophilus_harrisii_69_7.0   (Tasmanian devil)   8 4
Monodelphis_domestica_69_5   (Gray short-tailed opossum)   10 5
Ornithorhynchus_anatinus_69_5   (Platypus)   7 4
Petromyzon_marinus_69_7.0   (Sea lamprey)   14 9
Meleagris_gallopavo_69_2   (Turkey)   6 3
Gallus_gallus_69_2   (Chicken)   6 3
Taeniopygia_guttata_69_3.2.4   (Zebra finch)   6 3
Pelodiscus_sinensis_69_1.0   (Chinese soft-shelled turtle)   6 3
Anolis_carolinensis_69_2.0   (Green anole)   8 4
Xenopus_tropicalis_69_4.2   (Tropical clawed frog)   6 3
Latimeria_chalumnae_69_1   (Coelacanth)   7 4
Gadus_morhua_69_1   (Atlantic cod)   7 4
Tetraodon_nigroviridis_69_8   (Spotted green pufferfish)   7 4
Takifugu_rubripes_69_4   (Torafugu)   7 4
Gasterosteus_aculeatus_69_1   (Three-spined stickleback)   7 4
Oryzias_latipes_69_1   (Japanese medaka)   6 4
Xiphophorus_maculatus_69_4.4.2   (Southern platyfish)   7 4
Oreochromis_niloticus_69_1.0   (Nile tilapia)   7 4
Danio_rerio_69_9   (Zebrafish)   9 5
Ciona_savignyi_69_2.0   (Pacific transparent sea squirt)   7 5
Ciona_intestinalis_69   (Vase tunicate)   23 12
Drosophila_melanogaster_69_5   (Fruit fly)   8 4
Caenorhabditis_elegans_69_215   (Roundworm)   6 3

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Others
Genome     Number   Proteins
Homo_sapiens_75_37_(old_version_GRC)   (Human)   20 11
Homo_sapiens__(NCBI_version)   (Human)   14 7
Mus_musculus_63_37__(longest_transcript_per_gene)_(Duplicate)   (House mouse)   8 4
Heliconius_numata__(Incomplete) 2 1
Loa_loa_v3.3_(Request)   (Eye worm)   4 2
Wuchereria_bancrofti_v1.0_(Request)   (Agent of lymphatic filariasis)   4 3
Brugia_malayi_v1.0_(Duplicate)   (Agent of lymphatic filariasis)   6 4
PDB_chains_(SCOP_1.75)_(PDB) 16 8
Protein_Data_Bank_(all_PDB_sequenc) 85 49
SCOP2_SCOPe_CATH_ECOD_(all_domain_sequ) 159 159
STRING_v9.0.5_(STRING) 580 311
TargetDB__(Targets) 13 9
NCBI_2017_08_genome 8103 4611
Uniprot_2018_03_genome 8868 5190

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