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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |
| Basic Information | |
|---|---|
| Taxon OID | 3300033180 Open in IMG/M |
| Scaffold ID | Ga0307510_10000020 Open in IMG/M |
| Source Dataset Name | Populus trichocarpa ectomycorrhiza microbial communities from riparian zone in the Pacific Northwest, United States - 12_EM |
| Source Dataset Category | Metagenome |
| Source Dataset Use Policy | Open |
| Sequencing Center | DOE Joint Genome Institute (JGI) |
| Sequencing Status | Permanent Draft |
| Scaffold Components | |
|---|---|
| Scaffold Length (bps) | 185309 |
| Total Scaffold Genes | 246 (view) |
| Total Scaffold Genes with Ribosome Binding Sites (RBS) | 99 (40.24%) |
| Novel Protein Genes | 10 (view) |
| Novel Protein Genes with Ribosome Binding Sites (RBS) | 5 (50.00%) |
| Associated Families | 7 |
| Taxonomy | |
|---|---|
| All Organisms → cellular organisms → Eukaryota → Opisthokonta → Fungi → Dikarya → Basidiomycota → Agaricomycotina → Agaricomycetes | (Source: UniRef50) |
| Source Dataset Ecosystem |
|---|
| Host-Associated → Plants → Roots → Unclassified → Unclassified → Ectomycorrhiza → Soil And Ectomycorrhiza Microbial Communities From Populus Trichocarpa Stands In Riparian Zones In The Pacific Northwest, United States |
| Source Dataset Sampling Location | ||||||||
|---|---|---|---|---|---|---|---|---|
| Location Name | USA: Oregon | |||||||
| Coordinates | Lat. (o) | 45.654 | Long. (o) | -122.839 | Alt. (m) | Depth (m) | Location on Map | |
| Zoom: | Powered by OpenStreetMap © | |||||||
| Family | Category | Number of Sequences | 3D Structure? |
|---|---|---|---|
| F011464 | Metagenome | 290 | Y |
| F011985 | Metagenome | 284 | Y |
| F016903 | Metagenome | 243 | Y |
| F059500 | Metagenome | 133 | Y |
| F065271 | Metagenome | 127 | N |
| F087986 | Metagenome | 109 | Y |
| F098325 | Metagenome | 103 | Y |
| Protein ID | Family | RBS | Sequence |
|---|---|---|---|
| Ga0307510_1000002020 | F098325 | GGA | MCAHLHGVRGVGEGACFNGWGVGGGSSGYRSSMSASAISRGKGVVIGGISGEYATKMLKWVGVGDSGVCGRLPVLVGGCDGSDVDEVAFDNAVGVDKGRLACSCSNKGRTVGYGVTRLVNTGEYSEVAKLLDIVDGAGGE |
| Ga0307510_10000020236 | F059500 | GGA | MSGMGVDFSHLAGSAAFDVLGYEDFHSRPPVVGQNKLEGFGNSGMSSSFVVMKKGCYSPPKVIVCHNNKCHSMVPVSAIQ |
| Ga0307510_10000020240 | F016903 | GAG | MSPKEHPTSPDSPKAMAMSTPSSFGFTGLYGTPVQTIIEVKDELMEEGETYDSDSSREEGQIANTRQSTPDSMDIGIPRVPSDWLQPSSP |
| Ga0307510_1000002036 | F065271 | N/A | MVPIAHHIQEILQGPYNALPRIEQPLPPTPCSHHTSVSGNSDLVGATLQIYILEVIYLGVTAPTRNCTELHIFKQHCLFLLQNRTEKHISHPLTELQTITPHIGAFNKFFWKYLTSITINSILEDYRGITHHSDTRTPCLVKVCTIFYSWDNPSYTVTLA |
| Ga0307510_1000002046 | F011464 | N/A | MLINGLDACPKRVLSCDVVDNQFLDRSCVIFPGSWGRRFPGSRASKSHDVQVMEGSHDESRIGSYDMFPWSRDAEVTGL |
| Ga0307510_1000002050 | F011985 | GGAG | LVPQDLLDILPFSRLFSAQHFYHYIDYQLVDILNTARHCTAYWQLSGAHNFDQSPATQISLFYNETFFWHYFVPSHRPEIITQIQARHRIRFLSRFYVLETKVEVEFNEIRLQTNPSREFTSTNLYQFIYSDEQILTYQWNNCAWTTDLLTPHTSLIDPPSHFTLPITQPNTQGRDTEYLERFQCILLEPDLLTLNSSYHNSMNSCLPPTLVGTPQSSPPSIPESVYQHSQEITFSNDNPDLCFCRIDLCRCNSYYPRTPPTPLGIHLWDPRFFRAGPIEGLHYN |
| Ga0307510_1000002051 | F065271 | N/A | MVPVAHHLQEVLHGLYNVLPRIEQPLPPTPHSHHTSVSGNSDLVGATSQIYLPEVIYLGGTAPTRNCTELHIFKQHCLFLLQNRTEKHISHPLTELQTITPHIGAFNKFFWKYHTSITINSILEDYRGITHHSDTRTPCLVKVCTIFYSWDNPSYTVTFA |
| Ga0307510_1000002079 | F065271 | N/A | VEHHLQEVLQGPYNSLPRNQRPLPPTPHSHHTNVSGNSDLVGATLQIYLPKFIYLGVTAPTRNRTELHIFKQHCLFLLQNHTKKHISHPLTELQTITPHVGAFNKFFWKYRTSITINGILEDYRGITHHSDTRTPCLVKVCTIFYSWDNPSYTVTLA |
| Ga0307510_1000002089 | F011464 | N/A | MLINGLDVRPKRVLSGDLVDDQFLDRSCVIFPGSRGRRFPGSRADKSRDVQVVKGSRDESHAGSCDMFPRSRDAEVVGL |
| Ga0307510_1000002091 | F087986 | AGTAG | MKDVEQSLNDVRDDLEGMRTKTEGAVEATTLGIKPSQA |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |