 |
Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |
| Basic Information | |
|---|---|
| Taxon OID | 3300033179 Open in IMG/M |
| Scaffold ID | Ga0307507_10000047 Open in IMG/M |
| Source Dataset Name | Populus trichocarpa ectomycorrhiza microbial communities from riparian zone in the Pacific Northwest, United States - 7_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) | 172297 |
| Total Scaffold Genes | 83 (view) |
| Total Scaffold Genes with Ribosome Binding Sites (RBS) | 52 (62.65%) |
| Novel Protein Genes | 7 (view) |
| Novel Protein Genes with Ribosome Binding Sites (RBS) | 2 (28.57%) |
| Associated Families | 7 |
| Taxonomy | |
|---|---|
| All Organisms → cellular organisms → Eukaryota → Opisthokonta → Fungi → Dikarya → Ascomycota → saccharomyceta → Pezizomycotina | (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) | 44.5508 | Long. (o) | -123.25 | Alt. (m) | Depth (m) | Location on Map | |
| Zoom: | Powered by OpenStreetMap © | |||||||
| Family | Category | Number of Sequences | 3D Structure? |
|---|---|---|---|
| F000247 | Metagenome | 1464 | Y |
| F004318 | Metagenome / Metatranscriptome | 443 | Y |
| F017572 | Metagenome | 240 | Y |
| F024756 | Metagenome | 204 | Y |
| F027375 | Metagenome | 194 | Y |
| F032490 | Metagenome | 179 | Y |
| F054477 | Metagenome | 139 | Y |
| Protein ID | Family | RBS | Sequence |
|---|---|---|---|
| Ga0307507_100000471 | F000247 | AGG | VYTYIIRVTLNCKRTLYTEVAYTNYLTSSLNTFISITLVPSSGVPFTYLFIDGKLYYNSGLFLNKSIDLTSTGL |
| Ga0307507_1000004725 | F054477 | N/A | VSTSLGVKARANKLNSPGINWRYRLSIGIRLFFGFNIVASKEYRLTIIGSLEV |
| Ga0307507_1000004727 | F017572 | N/A | MLELVYGDIKPLVYKVDIYRGQEEDKWQVLKIISYKDVDDEI |
| Ga0307507_100000474 | F024756 | GGA | MLIYNIAYYKTAGESTGTNGLKRLILYLGSIMAAGKMEISNLYKTFLDLLL |
| Ga0307507_1000004743 | F032490 | N/A | MLNLKNNPIPTLNLQRQLILGGFNLLALALIPKGKPSSLKDYNNLNKVDINNILSFINYITIDK |
| Ga0307507_100000475 | F027375 | N/A | MLNKSHCSKNRSASSTTVIIVTIVKYPKNFVYLLIITRIALATSPVLILVKGKPIIKSIVNSNIGPYRIESINNLL |
| Ga0307507_1000004752 | F004318 | N/A | MVSYLGLSLVLGIELVLDLGSGSLSILFIVEYQLF |
| ⦗Top⦘ |
|
Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |