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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |
| Basic Information | |
|---|---|
| Taxon OID | 3300017734 Open in IMG/M |
| Scaffold ID | Ga0187222_1008130 Open in IMG/M |
| Source Dataset Name | Marine viral communities from the oligotrophic San Pedro Time Series (SPOT) site, San Pedro Channel, CA, USA ? 4 SPOT_SRF_2009-09-24 (version 2) |
| 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) | 2649 |
| Total Scaffold Genes | 7 (view) |
| Total Scaffold Genes with Ribosome Binding Sites (RBS) | 4 (57.14%) |
| Novel Protein Genes | 3 (view) |
| Novel Protein Genes with Ribosome Binding Sites (RBS) | 1 (33.33%) |
| Associated Families | 3 |
| Taxonomy | |
|---|---|
| All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Rhodospirillales → Rhodospirillaceae → unclassified Rhodospirillaceae → Rhodospirillaceae bacterium | (Source: UniRef50) |
| Source Dataset Ecosystem |
|---|
| Environmental → Aquatic → Marine → Strait → Unclassified → Seawater → Marine Viral Communities From The Oligotrophic San Pedro Time Series (Spot) Site, San Pedro Channel, Ca, Usa |
| Source Dataset Sampling Location | ||||||||
|---|---|---|---|---|---|---|---|---|
| Location Name | USA: California | |||||||
| Coordinates | Lat. (o) | 33.55 | Long. (o) | -118.4 | Alt. (m) | Depth (m) | 5 | Location on Map |
| Zoom: | Powered by OpenStreetMap © | |||||||
| Family | Category | Number of Sequences | 3D Structure? |
|---|---|---|---|
| F008915 | Metagenome / Metatranscriptome | 326 | Y |
| F046315 | Metagenome | 151 | Y |
| F060420 | Metagenome | 133 | N |
| Protein ID | Family | RBS | Sequence |
|---|---|---|---|
| Ga0187222_10081301 | F060420 | AGGA | MIPNRLTVDQLDNYFQTATYVERYMPSPLNMKNRRTEMFSLIDRLYGIGKDKDSYKGEDKPKMKIRLNGEQLQVYEFCILLLVKASEKDRDI |
| Ga0187222_10081305 | F008915 | N/A | MGFIVDNEITLDLYEMQSASHLGILRCLESKKHKENWGYNYKGSLNDQMAKSISGAMGEVAASKFLGIKFEYHCNVGGVPDLIFKDLRLQVRTQTPKNNNSLIIRPKAKPGEFYILVIDEAPKFKILGFVNSTYVLGQEQWKTTFGLDRPFCYSIPPEKLTPINLLKDSTWN |
| Ga0187222_10081307 | F046315 | N/A | MNHLMNKKFMEYSVKSSYNSEFVESYMKRKDLLPKEFKFRRTALDLLLKESNKKISDFVKDTYKENEEKNKLAQISKILNPKPNAPKYFTENDLANDLAHWFNDFCDLNTVVSANFFIGETCQINVFGSLFGNGQIDINKGKDIYKINIHPKYSNCVAVESKIGSSRGLMRLYVPKKNIDRNADNRFAIAQDKKTKIIWFGFLEPK |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |