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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |
| Basic Information | |
|---|---|
| Taxon OID | 3300017743 Open in IMG/M |
| Scaffold ID | Ga0181402_1000982 Open in IMG/M |
| Source Dataset Name | Marine viral communities from the oligotrophic San Pedro Time Series (SPOT) site, San Pedro Channel, CA, USA ? 25 SPOT_SRF_2011-08-17 |
| 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) | 10424 |
| Total Scaffold Genes | 35 (view) |
| Total Scaffold Genes with Ribosome Binding Sites (RBS) | 16 (45.71%) |
| Novel Protein Genes | 4 (view) |
| Novel Protein Genes with Ribosome Binding Sites (RBS) | 2 (50.00%) |
| 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) | 5 | Location on Map |
| Zoom: | Powered by OpenStreetMap © | |||||||
| Family | Category | Number of Sequences | 3D Structure? |
|---|---|---|---|
| F007770 | Metagenome | 345 | Y |
| F029710 | Metagenome / Metatranscriptome | 187 | Y |
| F048843 | Metagenome / Metatranscriptome | 147 | Y |
| F059455 | Metagenome | 134 | Y |
| Protein ID | Family | RBS | Sequence |
|---|---|---|---|
| Ga0181402_100098214 | F059455 | GAGG | MSNLIETQIVWSKGRTRQEMQKQTSWSSSKDFSGLSGLEVKAWNFTTHVTCKAITSHGMSNNKYFQIPVDKIEEFCNTLMQAKQLMESNNEKI |
| Ga0181402_100098218 | F048843 | N/A | MSKITDKAKKEKYFVFSVPTAYVYEIQAETEKEAREILVEHGGIEIYGEQCEMLAEDYENAELSETYEM |
| Ga0181402_10009824 | F007770 | N/A | MSGEGLSVSFRRTQETTKSNSELLEEFQKIIYSSRVMKHMKWYGKDYSVYLEEHGDEELTSWQRDGVAIKDTFQLCISVYESWGEDSDLYESHEREDSFVSLARKFANDNALMYFPDGFPSEWIEQEIINEKKHWNHFIVKPDDKNIDEICNVYYRYGIMKLQAFDEKVESQLWQDAKTEIKRLMEHEHR |
| Ga0181402_10009826 | F029710 | GGA | MKVDSWLTIRQEDDTDDLSAPIMWLDNNLEYDLFPSDDLNIDWVEEMDKDGAPIIEGDHLGRDICIEVTCPSKNLDKRKAIAYNIDFDWN |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |