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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |
| Basic Information | |
|---|---|
| Taxon OID | 3300017749 Open in IMG/M |
| Scaffold ID | Ga0181392_1004177 Open in IMG/M |
| Source Dataset Name | Marine viral communities from the oligotrophic San Pedro Time Series (SPOT) site, San Pedro Channel, CA, USA ? 15 SPOT_SRF_2010-09-15 |
| 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) | 5059 |
| Total Scaffold Genes | 12 (view) |
| Total Scaffold Genes with Ribosome Binding Sites (RBS) | 5 (41.67%) |
| Novel Protein Genes | 4 (view) |
| Novel Protein Genes with Ribosome Binding Sites (RBS) | 1 (25.00%) |
| Associated Families | 4 |
| Taxonomy | |
|---|---|
| All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Flavobacteriia → Flavobacteriales → Crocinitomicaceae → unclassified Crocinitomicaceae → Crocinitomicaceae bacterium TMED45 | (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) | 0 | Location on Map |
| Zoom: | Powered by OpenStreetMap © | |||||||
| Family | Category | Number of Sequences | 3D Structure? |
|---|---|---|---|
| F007770 | Metagenome | 345 | Y |
| F016956 | Metagenome / Metatranscriptome | 243 | Y |
| F023615 | Metagenome / Metatranscriptome | 209 | Y |
| F029710 | Metagenome / Metatranscriptome | 187 | Y |
| Protein ID | Family | RBS | Sequence |
|---|---|---|---|
| Ga0181392_100417710 | F023615 | N/A | MNRFELEDAMSDLDQIGQDIETIIYAIGDSPIKHTEDQLLNMLIGMKQMHETRYQKMWNIFESLIKNKIISNKER |
| Ga0181392_10041776 | F029710 | AGGA | MSKVDSWLTIRQEDDTDDWSAPIMWLDDMSEDDLFPSDDLNIDWVEEMDKEGAPIIDGDHLGRDICIEVTCPSKKLDKRRAVGYNIDFDWN |
| Ga0181392_10041777 | F007770 | N/A | MSGEGLSVSFRRTQMTAKSNQELLAEFQKIIYASPVTRHMKWYGKNHSVDILEHGDDNRQKWEQEYVAIKDTFQFEISVCESWYEDADLYESHEREDSFVSLARKFAVDNYLMYFSQGFPAEWIETETTDGERCWNHYNVKPDDKNIDKICKVWHDYGMKMIQAEQYGQTDDMKSSYWASARNQIKGLMEYEQSR |
| Ga0181392_10041779 | F016956 | N/A | MIQLEKPWKAPKEVALAIIDLALAHIKKVEANPEVETEGDNFDYWNSYQLEDGTYIDYNIYCGDDIGEFTDDGDYIYYDPSQWSWDVACYAVDPPTKDNPHHQIDTDRTNYLFHYNKEGDGKIVYED |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |