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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |
| Basic Information | |
|---|---|
| Taxon OID | 3300030522 Open in IMG/M |
| Scaffold ID | Ga0307512_10000133 Open in IMG/M |
| Source Dataset Name | Populus trichocarpa ectomycorrhiza microbial communities from riparian zone in the Pacific Northwest, United States - 14_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) | 95569 |
| Total Scaffold Genes | 112 (view) |
| Total Scaffold Genes with Ribosome Binding Sites (RBS) | 74 (66.07%) |
| Novel Protein Genes | 5 (view) |
| Novel Protein Genes with Ribosome Binding Sites (RBS) | 3 (60.00%) |
| Associated Families | 5 |
| Taxonomy | |
|---|---|
| All Organisms → cellular organisms → Eukaryota → Opisthokonta → Fungi → Dikarya → Ascomycota → saccharomyceta → Pezizomycotina → Pezizomycetes → Pezizales → Pyronemataceae → Pyronema → Pyronema omphalodes → Pyronema omphalodes CBS 100304 | (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) | 45.6996 | Long. (o) | -121.669 | Alt. (m) | Depth (m) | Location on Map | |
| Zoom: | Powered by OpenStreetMap © | |||||||
| Family | Category | Number of Sequences | 3D Structure? |
|---|---|---|---|
| F004778 | Metagenome | 423 | Y |
| F006048 | Metagenome | 382 | Y |
| F008531 | Metagenome | 332 | Y |
| F010438 | Metagenome | 303 | Y |
| F036505 | Metagenome | 169 | Y |
| Protein ID | Family | RBS | Sequence |
|---|---|---|---|
| Ga0307512_10000133109 | F036505 | GAG | MSSVGVKGHTKSWEAHERDQQFGENVSIDIGKSQRLPKEGNARIKKVSAMRSGLAKKIEKVHISSYFERPETDLHIAENACCIDYADTEL |
| Ga0307512_100001334 | F010438 | GGAG | MWNRRPLMSASDLETVSYATRRIAKALAEAPHWQIIETYWNTAMQQNNIWSVAFEARTKEIFKEVC |
| Ga0307512_100001335 | F006048 | AGGAG | MLNQWPTVDITRSNRYQVRTQVDKVKSHFIQSVRDNIAERYDLHRFESAAERLEFIDSLLADDKYRFPVAEPVEGGVRGPHPTQSESKAYNEWLASTLLPGGGTHAVYLHQILSSGE |
| Ga0307512_1000013358 | F004778 | N/A | VLDHFELTDGRLLGISTDNASSNYSMTRELQSTLEASGIEWPALRNHIPCMAHIIQLALGAFMSSLGVKDRTKSWETHEHDQQFGENESIDIGKSQRLRKEGDARINKVSAMRPGLAKMIEKVRIS |
| Ga0307512_1000013397 | F008531 | N/A | MAHDIQLALGAFLSSLGGNGRTKSGEAHERDQQFGENECTDIGKSQRLRKEGNARINKVSAMKPGLAKIIEKVRI |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |