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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |
| Basic Information | |
|---|---|
| Taxon OID | 3300027393 Open in IMG/M |
| Scaffold ID | Ga0209867_1000157 Open in IMG/M |
| Source Dataset Name | Groundwater microbial communities from the Columbia River, Washington, USA, for microbe roles in carbon and contaminant biogeochemistry - GW-RW metaG T4_4-Nov-14 (SPAdes) |
| 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) | 15766 |
| Total Scaffold Genes | 34 (view) |
| Total Scaffold Genes with Ribosome Binding Sites (RBS) | 31 (91.18%) |
| Novel Protein Genes | 5 (view) |
| Novel Protein Genes with Ribosome Binding Sites (RBS) | 3 (60.00%) |
| Associated Families | 5 |
| Taxonomy | |
|---|---|
| All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → environmental samples → uncultured Caudovirales phage | (Source: UniRef50) |
| Source Dataset Ecosystem |
|---|
| Environmental → Terrestrial → Soil → Sand → Unclassified → Sand → Groundwater Microbial Communities From The Columbia River, Washington, Usa |
| Source Dataset Sampling Location | ||||||||
|---|---|---|---|---|---|---|---|---|
| Location Name | USA: Columbia River, Washington | |||||||
| Coordinates | Lat. (o) | 46.372 | Long. (o) | -119.272 | Alt. (m) | Depth (m) | Location on Map | |
| Zoom: | Powered by OpenStreetMap © | |||||||
| Family | Category | Number of Sequences | 3D Structure? |
|---|---|---|---|
| F003784 | Metagenome | 468 | Y |
| F003863 | Metagenome | 464 | Y |
| F004110 | Metagenome | 452 | Y |
| F013279 | Metagenome / Metatranscriptome | 272 | Y |
| F023324 | Metagenome / Metatranscriptome | 210 | Y |
| Protein ID | Family | RBS | Sequence |
|---|---|---|---|
| Ga0209867_10001571 | F023324 | N/A | GETDLKTLAMAAVAGFAGPVLKWLDASSTEFGRGSK |
| Ga0209867_100015713 | F003784 | GGA | MYDDDRERVGHNATDFAAYGLSHLATGPSNTTDTHTPTTNPLVDHAAVTGYRGQGVATEDLTSFIESFASLRAHRVKGVGHEQYSHAKGQKFESFTTSDTIRELIEELADASNYIDFLAIKLLNIQHTIDRVLPDCD |
| Ga0209867_100015714 | F004110 | N/A | VTELHPVIYDLVPSVANTIHRRYKNHVERDDIKQELMAWAMTRVEDHIIDLMEPIEERRRHNEQRIAWQMKRAGERYARKEKAAKSGYQTNDEAYYESATLGQLLPFVIASVIDGTVLEQAQEMISDGQPKGSSSPAEGGNLLANLIDIKNGFLKLDQEDQTLLRMRHHESFTLQQIAQVLECAISTADRRCAQSLRRLQDNLGGVSPWQ |
| Ga0209867_100015716 | F013279 | AGGCGG | MQYDYRCPDCNSELTIERSIHEEPREPSCFDCHIPMIRKWDSPAVTFKGKGFYSNGG |
| Ga0209867_100015719 | F003863 | GGAGG | MESKEVSGKQSIHYRNYRRARDKALVRLAHLYPDTYKQLLDEQRSFDEQEGKSWIINADSRLTIAIHTRANAVPDVAGRTDYDSSDEGYNGGEA |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |