SUPERFAMILY 1.75 HMM library and genome assignments server

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Domain combinations for TNF-like 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 TNF-like domain in that genome.

Complete genomes
Genome     Number   Proteins
Homo_sapiens_76_38   (Human)   145 143
Pan_troglodytes_76_2.1.4   (Chimpanzee)   54 53
Gorilla_gorilla_76_3.1   (Western gorilla)   68 65
Pongo_abelii_76_2   (Sumatran orangutan)   45 44
Nomascus_leucogenys_76_1.0   (Northern white-cheeked gibbon)   45 43
Papio_anubis_76   (Olive baboon)   53 51
Macaca_mulatta_76_1   (Rhesus monkey)   68 66
Callithrix_jacchus_76_3.2.1   (White-tufted-ear marmoset)   95 92
Otolemur_garnettii_76_3   (Small-eared galago)   53 51
Microcebus_murinus_76_1   (Gray mouse lemur)   38 37
Rattus_norvegicus_76_5.0   (Norway rat)   53 52
Mus_musculus_76_38   (House mouse)   86 82
Dipodomys_ordii_76_1   (Ord's kangaroo rat)   36 35
Ictidomys_tridecemlineatus_76_2   (Thirteen-lined ground squirrel)   52 50
Heterocephalus_glaber_v1.7-2   (Naked mole-rat)   47 46
Cavia_porcellus_76_3   (Domestic guinea pig)   50 47
Oryctolagus_cuniculus_76_2   (Rabbit)   54 53
Ochotona_princeps_76   (American pika)   36 36
Tupaia_belangeri_76   (Northern tree shrew)   39 38
Sus_scrofa_76_10.2   (Pig)   57 56
Bos_taurus_76_3.1   (Cattle)   55 55
Ovis_aries_76_3.1   (Sheep)   53 53
Vicugna_pacos_76_1   (Alpaca)   22 22
Tursiops_truncatus_76_1   (Bottlenose dolphin)   46 44
Mustela_putorius_furo_76_1.0   (Domestic ferret)   50 49
Ailuropoda_melanoleuca_76_1   (Giant panda)   57 56
Canis_familiaris_76_3.1   (Dog)   58 56
Felis_catus_76_6.2   (Domestic cat)   48 48
Equus_caballus_76_2   (Horse)   51 50
Myotis_lucifugus_76_2.0   (Little brown bat)   45 45
Pteropus_vampyrus_76_1   (Large flying fox)   46 45
Sorex_araneus_76_1   (European shrew)   23 22
Erinaceus_europaeus_76   (Western European hedgehog)   31 30
Procavia_capensis_76_1   (Cape rock hyrax)   38 37
Loxodonta_africana_76_3   (African savanna elephant)   60 58
Echinops_telfairi_76   (Small Madagascar hedgehog)   35 35
Dasypus_novemcinctus_76_2   (Nine-banded armadillo)   60 58
Choloepus_hoffmanni_76_1   (Hoffmann's two-fingered sloth)   21 21
Macropus_eugenii_76_1.0   (Tammar wallaby)   36 36
Sarcophilus_harrisii_76_7.0   (Tasmanian devil)   51 50
Monodelphis_domestica_76_5   (Gray short-tailed opossum)   46 46
Ornithorhynchus_anatinus_76_5   (Platypus)   45 43
Saccoglossus_kowalevskii_v3.0 37 37
Petromyzon_marinus_76_7.0   (Sea lamprey)   20 19
Meleagris_gallopavo_76_2   (Turkey)   37 37
Gallus_gallus_76_4   (Chicken)   38 37
Anas_platyrhynchos_76_1.0   (Mallard)   35 34
Taeniopygia_guttata_76_3.2.4   (Zebra finch)   39 38
Ficedula_albicollis_76_1.0   (Collared flycatcher)   43 42
Pelodiscus_sinensis_76_1.0   (Chinese soft-shelled turtle)   42 41
Anolis_carolinensis_76_2.0   (Green anole)   43 42
Xenopus_laevis_   (African clawed frog)   38 36
Xenopus_tropicalis_76_4.2   (Tropical clawed frog)   42 41
Latimeria_chalumnae_76_1   (Coelacanth)   58 56
Lepisosteus_oculatus_76   (Spotted gar)   59 57
Gadus_morhua_76_1   (Atlantic cod)   65 63
Tetraodon_nigroviridis_76_8   (Spotted green pufferfish)   65 63
Takifugu_rubripes_76_4   (Torafugu)   94 90
Gasterosteus_aculeatus_76_1   (Three-spined stickleback)   68 66
Oryzias_latipes_76_1   (Japanese medaka)   64 63
Xiphophorus_maculatus_76_4.4.2   (Southern platyfish)   78 75
Poecilia_formosa_76   (Amazon molly)   94 85
Oreochromis_niloticus_76_1.0   (Nile tilapia)   111 109
Astyanax_mexicanus_76   (Mexican tetra)   78 76
Danio_rerio_76_9   (Zebrafish)   113 110
Oikopleura_dioica 8 8
Ciona_savignyi_76_2.0   (Pacific transparent sea squirt)   9 8
Ciona_intestinalis_76   (Vase tunicate)   11 10
Strongylocentrotus_purpuratus_v3.1   (Purple sea urchin)   20 17
Adineta_vaga 13 13
Octopus_bimaculoides_280 10 10
Crassostrea_gigas_22   (Pacific oyster)   393 346
Lottia_gigantea_   (Owl limpet)   16 15
Helobdella_robusta_ 16 13
Capitella_sp._I_ 62 39
Danaus_plexippus_OGS1.0   (Monarch butterfly)   2 2
Heliconius_melpomene_   (Postman butterfly)   2 2
Bombyx_mori_   (Domestic silkworm)   1 1
Nasonia_vitripennis_   (Jewel wasp)   1 1
Apis_mellifera_38.2d_(Not_maintained)   (Honey bee)   3 3
Harpegnathos_saltator_v3.3   (Jerdon's jumping ant)   2 2
Linepithema_humile_v1.1   (Argentine ant)   2 2
Pogonomyrmex_barbatus_v1.2   (Red harvester ant)   3 3
Solenopsis_invicta_v.2.2.3   (Red fire ant)   3 3
Acromyrmex_echinatior_v3.8   (Panamanian leafcutter ant)   2 2
Atta_cephalotes_v1.1 2 2
Camponotus_floridanus_v3.3   (Florida carpenter ant)   3 3
Lucilia_cuprina   (Australian sheep blowfly)   1 1
Drosophila_grimshawi_1.3 1 1
Drosophila_willistoni_1.3 1 1
Drosophila_pseudoobscura_2.13 1 1
Drosophila_persimilis_1.3 1 1
Drosophila_suzukii 1 1
Drosophila_yakuba_1.3 1 1
Drosophila_simulans_1.3 1 1
Drosophila_sechellia_1.3 1 1
Drosophila_melanogaster_76_5   (Fruit fly)   2 2
Drosophila_erecta_1.3 1 1
Drosophila_ananassae_1.3 1 1
Drosophila_virilis_1.2 1 1
Drosophila_mojavensis_1.3 1 1
Aedes_aegypti_55_(Not_maintained)   (Yellow fever mosquito)   1 1
Culex_pipiens_quinquefasciatus_   (Southern house mosquito)   1 1
Anopheles_darlingi_22   (American malaria mosquito)   1 1
Anopheles_gambiae_49_3j   (African malaria mosquito)   1 1
Tribolium_castaneum_3.0   (Red flour beetle)   1 1
Pediculus_humanus_corporis__(Early_assembly)   (Human body louse)   1 1
Acyrthosiphon_pisum_   (Pea aphid)   2 2
Rhodnius_prolixus_22 2 2
Daphnia_pulex_   (Common water flea)   156 154
Strigamia_maritima_22 5 5
Tetranychus_urticae_   (Two-spotted spider mite)   1 1
Ixodes_scapularis__(Preliminary)   (Black-legged tick)   2 2
Caenorhabditis_brenneri_ 1 1
Caenorhabditis_elegans_76_235   (Roundworm)   1 1
Caenorhabditis_briggsae_2 1 1
Hymenolepis_microstoma_ 1 1
Echinococcus_multilocularis_ 2 2
Echinococcus_granulosus_ 2 2
Taenia_solium_   (Pork tapeworm)   2 2
Schistosoma_mansoni_ 2 2
Acropora_digitifera_v1.0 19 17
Nematostella_vectensis_1.0   (Starlet sea anemone)   7 6
Hydra_vulgaris 8 8
Trichoplax_adhaerens_ 1 1
Monosiga_brevicollis_ 5 4
Dictyostelium_discoideum 1 1
Cyanophora_paradoxa_ 5 5
Pythium_arrhenomanes_ATCC_12531_22 1 1
Phytophthora_sojae_1.1 2 2
Phytophthora_capsici_ 1 1
Symbiodinium_minutum_clade_B1_v1.2 5 2
Streptomyces_cattleya_NRRL_8057_=_DSM_46488 1 1
Meiothermus_silvanus_DSM_9946 1 1
Ethanoligenens_harbinense_YUAN-3 1 1
Oscillibacter_valericigenes_Sjm18-20 1 1
Syntrophobotulus_glycolicus_DSM_8271 1 1
Desulfotomaculum_ruminis_DSM_2154 1 1
Clostridium_perfringens_ATCC_13124 1 1
Caldicellulosiruptor_hydrothermalis_108 1 1
Paenibacillus_sp._JDR-2 2 2
Paenibacillus_terrae_HPL-003 1 1
Paenibacillus_polymyxa_M1 2 2
Lysinibacillus_sphaericus_C3-41 1 1
Bacillus_sp._JS 1 1
Bacillus_atrophaeus_1942 2 2
Bacillus_subtilis_subsp._subtilis_str._168 2 2
Bacillus_licheniformis_DSM_13_=_ATCC_14580 1 1
Bacillus_halodurans_C-125 1 1
Bacillus_weihenstephanensis_KBAB4 4 4
Bacillus_thuringiensis_str._Al_Hakam 4 4
Bacillus_cereus_03BB102 4 4
Bacillus_anthracis_str._A0248 3 3
Bacillus_pumilus_SAFR-032 1 1
Dyadobacter_fermentans_DSM_18053 1 1
Runella_slithyformis_DSM_19594 1 1
Solitalea_canadensis_DSM_3403 2 2
Owenweeksia_hongkongensis_DSM_17368 2 2
Zunongwangia_profunda_SM-A87 1 1
Krokinobacter_sp._4H-3-7-5 1 1
Lacinutrix_sp._5H-3-7-4 1 1
Zobellia_galactanivorans 1 1
Flavobacteriaceae_bacterium_3519-10 1 1
Flavobacterium_indicum_GPTSA100-9 3 3
Desulfovibrio_africanus_str._Walvis_Bay 1 1
Phaeobacter_gallaeciensis_2.10 1 1
Ketogulonicigenium_vulgare_Y25 1 1
Ketogulonigenium_vulgarum_WSH-001 1 1
Roseobacter_litoralis_Och_149 2 2
Roseobacter_denitrificans_OCh_114 1 1
Paracoccus_denitrificans_PD1222 1 1
Azospirillum_lipoferum_4B 1 1
Azospirillum_brasilense_Sp245 1 1
Xanthobacter_autotrophicus_Py2 1 1
Agrobacterium_sp._H13-3 1 1
Oligotropha_carboxidovorans_OM4 1 1
Nitrobacter_hamburgensis_X14 1 1
Shewanella_woodyi_ATCC_51908 1 1
Pseudomonas_sp._TKP 1 1
Pseudomonas_brassicacearum_subsp._brassicacearum_NFM421 1 1
Pseudomonas_entomophila_L48 1 1
Pseudomonas_protegens_Pf-5 1 1
Pseudomonas_fluorescens_SBW25 1 1

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Strains
Genome     Number   Proteins
Xenopus_(Silurana)_tropicalis_v7.1_(annotation_v7.2)   (Tropical clawed frog)   62 60
Drosophila_melanogaster_FlyBase_5.12_(FlyBase)   (Fruit fly)   2 2
Anopheles_gambiae_VectorBase_AgamP3.6__(VectorBase)   (African malaria mosquito)   1 1
Caenorhabditis_elegans_WormBase_WS218__(WormBase)   (Roundworm)   1 1
Streptomyces_cattleya_NRRL_8057_=_DSM_46488 1 1
Clostridium_acidurici_9a 1 1
Desulfosporosinus_meridiei_DSM_13257 1 1
Clostridium_perfringens_SM101 1 1
Clostridium_perfringens_str._13 1 1
Lactococcus_lactis_subsp._cremoris_SK11 1 1
Paenibacillus_larvae_subsp._larvae_DSM_25430 2 2
Paenibacillus_polymyxa_CR1 1 1
Paenibacillus_polymyxa_SC2 2 2
Paenibacillus_polymyxa_E681 1 1
Bacillus_amyloliquefaciens_XH7 1 1
Bacillus_amyloliquefaciens_LL3 1 1
Bacillus_amyloliquefaciens_TA208 1 1
Bacillus_subtilis_PY79 2 2
Bacillus_subtilis_XF-1 2 2
Bacillus_subtilis_QB928 1 1
Bacillus_subtilis_BSn5 3 3
Bacillus_subtilis_subsp._subtilis_str._BAB-1 1 1
Bacillus_subtilis_subsp._subtilis_str._BSP1 1 1
Bacillus_subtilis_subsp._subtilis_str._RO-NN-1 1 1
Bacillus_subtilis_subsp._subtilis_6051-HGW 2 2
Bacillus_subtilis_subsp._spizizenii_TU-B-10 4 4
Bacillus_subtilis_subsp._spizizenii_str._W23 1 1
Bacillus_subtilis_subsp._natto_BEST195 1 1
Bacillus_toyonensis_BCT-7112 2 2
Bacillus_thuringiensis_HD-771 3 3
Bacillus_thuringiensis_HD-789 3 3
Bacillus_thuringiensis_MC28 4 4
Bacillus_thuringiensis_serovar_chinensis_CT-43 2 2
Bacillus_thuringiensis_YBT-1518 2 2
Bacillus_thuringiensis_Bt407 2 2
Bacillus_thuringiensis_serovar_konkukian_str._97-27 4 4
Bacillus_thuringiensis_serovar_kurstaki_str._HD73 1 1
Bacillus_thuringiensis_BMB171 7 7
Bacillus_thuringiensis_serovar_finitimus_YBT-020 3 3
Bacillus_thuringiensis_serovar_thuringiensis_str._IS5056 3 3
Bacillus_cereus_FRI-35 1 1
Bacillus_cereus_biovar_anthracis_str._CI 4 4
Bacillus_cereus_AH820 3 3
Bacillus_cereus_AH187 2 2
Bacillus_cereus_B4264 3 3
Bacillus_cereus_G9842 3 3
Bacillus_cereus_Q1 2 2
Bacillus_cereus_F837/76 4 4
Bacillus_cereus_NC7401 2 2
Bacillus_cereus_E33L 5 5
Bacillus_cereus_ATCC_14579 5 5
Bacillus_cereus_ATCC_10987 3 3
Bacillus_anthracis_str._H9401 4 4
Bacillus_anthracis_str._CDC_684 4 4
Bacillus_anthracis_str._'Ames_Ancestor' 4 4
Bacillus_anthracis_str._Sterne 4 4
Bacillus_anthracis_str._Ames 4 4
Bacillus_megaterium_WSH-002 2 2
Bacillus_megaterium_QM_B1551 3 3
Nonlabens_dokdonensis_DSW-6 1 1
Leisingera_methylohalidivorans_DSM_14336 1 1
Oligotropha_carboxidovorans_OM5 1 1
Oligotropha_carboxidovorans_OM5 1 1
Mannheimia_haemolytica_USMARC_2286 3 3
Mannheimia_haemolytica_M42548 3 3
Mannheimia_haemolytica_D174 3 3
Mannheimia_haemolytica_D153 3 3
Mannheimia_haemolytica_USDA-ARS-USMARC-183 2 2
Mannheimia_haemolytica_USDA-ARS-USMARC-185 1 1
Pseudomonas_monteilii_SB3101 1 1
Pseudomonas_monteilii_SB3078 1 1
Pseudomonas_putida_S16 1 1
Pseudomonas_protegens_CHA0 1 1
Pseudomonas_poae_RE*1-1-14 1 1
Pseudomonas_fluorescens_F113 1 1
Pseudomonas_fluorescens_A506 1 1
Pseudomonas_fluorescens_Pf0-1 2 2

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Longest transcript per gene
Genome     Number   Proteins
Homo_sapiens_69_37   (Human)   76 73
Pan_troglodytes_69_2.1.4   (Chimpanzee)   51 50
Gorilla_gorilla_69_3.1   (Western gorilla)   50 48
Pongo_abelii_69_2   (Sumatran orangutan)   44 43
Nomascus_leucogenys_69_1.0   (Northern white-cheeked gibbon)   43 41
Macaca_mulatta_69_1   (Rhesus monkey)   49 47
Callithrix_jacchus_69_3.2.1   (White-tufted-ear marmoset)   51 49
Otolemur_garnettii_69_3   (Small-eared galago)   53 51
Microcebus_murinus_69_1   (Gray mouse lemur)   38 37
Rattus_norvegicus_69_3.4   (Norway rat)   45 43
Mus_musculus_69_38   (House mouse)   52 50
Dipodomys_ordii_69_1   (Ord's kangaroo rat)   36 35
Ictidomys_tridecemlineatus_69_2   (Thirteen-lined ground squirrel)   52 50
Cavia_porcellus_69_3   (Domestic guinea pig)   48 46
Oryctolagus_cuniculus_69_2   (Rabbit)   47 46
Ochotona_princeps_69   (American pika)   36 36
Tupaia_belangeri_69   (Northern tree shrew)   39 38
Sus_scrofa_69_10.2   (Pig)   50 49
Bos_taurus_69_3.1   (Cattle)   52 52
Vicugna_pacos_69_1   (Alpaca)   22 22
Tursiops_truncatus_69_1   (Bottlenose dolphin)   46 44
Mustela_putorius_furo_69_1.0   (Domestic ferret)   49 48
Ailuropoda_melanoleuca_69_1   (Giant panda)   49 48
Canis_familiaris_69_3.1   (Dog)   50 48
Felis_catus_69   (Domestic cat)   34 34
Equus_caballus_69_2   (Horse)   50 49
Myotis_lucifugus_69_2.0   (Little brown bat)   45 45
Pteropus_vampyrus_69_1   (Large flying fox)   46 45
Sorex_araneus_69_1   (European shrew)   23 22
Erinaceus_europaeus_69   (Western European hedgehog)   31 30
Procavia_capensis_69_1   (Cape rock hyrax)   38 37
Loxodonta_africana_69_3   (African savanna elephant)   50 49
Echinops_telfairi_69   (Small Madagascar hedgehog)   35 35
Dasypus_novemcinctus_69_2   (Nine-banded armadillo)   26 26
Choloepus_hoffmanni_69_1   (Hoffmann's two-fingered sloth)   21 21
Macropus_eugenii_69_1.0   (Tammar wallaby)   36 36
Sarcophilus_harrisii_69_7.0   (Tasmanian devil)   44 43
Monodelphis_domestica_69_5   (Gray short-tailed opossum)   45 45
Ornithorhynchus_anatinus_69_5   (Platypus)   41 39
Petromyzon_marinus_69_7.0   (Sea lamprey)   20 19
Meleagris_gallopavo_69_2   (Turkey)   33 33
Gallus_gallus_69_2   (Chicken)   38 37
Taeniopygia_guttata_69_3.2.4   (Zebra finch)   37 36
Pelodiscus_sinensis_69_1.0   (Chinese soft-shelled turtle)   38 37
Anolis_carolinensis_69_2.0   (Green anole)   37 36
Xenopus_tropicalis_69_4.2   (Tropical clawed frog)   38 37
Latimeria_chalumnae_69_1   (Coelacanth)   50 48
Gadus_morhua_69_1   (Atlantic cod)   53 51
Tetraodon_nigroviridis_69_8   (Spotted green pufferfish)   59 57
Takifugu_rubripes_69_4   (Torafugu)   50 47
Gasterosteus_aculeatus_69_1   (Three-spined stickleback)   54 52
Oryzias_latipes_69_1   (Japanese medaka)   54 53
Xiphophorus_maculatus_69_4.4.2   (Southern platyfish)   78 75
Oreochromis_niloticus_69_1.0   (Nile tilapia)   94 92
Danio_rerio_69_9   (Zebrafish)   82 80
Ciona_savignyi_69_2.0   (Pacific transparent sea squirt)   9 8
Ciona_intestinalis_69   (Vase tunicate)   11 10
Drosophila_melanogaster_69_5   (Fruit fly)   1 1
Caenorhabditis_elegans_69_215   (Roundworm)   1 1

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Others
Genome     Number   Proteins
Homo_sapiens_75_37_(old_version_GRC)   (Human)   155 152
Homo_sapiens__(NCBI_version)   (Human)   79 77
Mus_musculus_63_37__(longest_transcript_per_gene)_(Duplicate)   (House mouse)   54 51
Heliconius_numata__(Incomplete) 1 1
NCBI_plasmid_sequences_(Plasmids) 9 9
NCBI_viral_sequences_(Viral) 48 48
Protein_Data_Bank_(all_PDB_sequenc) 545 533
SCOP2_SCOPe_CATH_ECOD_(all_domain_sequ) 1295 1295
STRING_v9.0.5_(STRING) 1483 1430
Uniprot_2018_03_genome 15215 14867
PDB_chains_(SCOP_1.75)_(PDB) 40 40
NCBI_2017_08_genome 25085 24555
TargetDB__(Targets) 16 16
UniProt__viral_sequences_(Viral) 16 16

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