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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |
| Basic Information | |
|---|---|
| Taxon OID | 3300022208 Open in IMG/M |
| Scaffold ID | Ga0224495_10016525 Open in IMG/M |
| Source Dataset Name | Sediment microbial communities from San Francisco Bay, California, United States - SF_Jul11_sed_USGS_4_1 |
| 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) | 3662 |
| Total Scaffold Genes | 9 (view) |
| Total Scaffold Genes with Ribosome Binding Sites (RBS) | 2 (22.22%) |
| Novel Protein Genes | 3 (view) |
| Novel Protein Genes with Ribosome Binding Sites (RBS) | 1 (33.33%) |
| Associated Families | 3 |
| Taxonomy | |
|---|---|
| All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → unclassified Caudoviricetes → Caudoviricetes sp. | (Source: UniRef50) |
| Source Dataset Ecosystem |
|---|
| Environmental → Aquatic → Marine → Sediment → Unclassified → Sediment → Estuarine Microbial Communities From The San Francisco Bay-Delta (Sfbd), California, United States |
| Source Dataset Sampling Location | ||||||||
|---|---|---|---|---|---|---|---|---|
| Location Name | USA: California | |||||||
| Coordinates | Lat. (o) | 38.05 | Long. (o) | -121.934 | Alt. (m) | Depth (m) | 11 | Location on Map |
| Zoom: | Powered by OpenStreetMap © | |||||||
| Family | Category | Number of Sequences | 3D Structure? |
|---|---|---|---|
| F012017 | Metagenome / Metatranscriptome | 284 | N |
| F022191 | Metagenome | 215 | N |
| F057334 | Metagenome / Metatranscriptome | 136 | N |
| Protein ID | Family | RBS | Sequence |
|---|---|---|---|
| Ga0224495_100165252 | F022191 | GGAGG | VGQRAGSVGAMPEGIKTDGSHGRTTYSPQKLVNDLAVATLEGRGLGLKKHPRLGYVTEEDKRLFQRIVGITVEEFNQRLIGKLDNLADRIVDRMLDTVEDTPLNSLGFNLAVAIDKRQRLAGLNATQGANVNIQVNNYGQLSKEEIVARLSGKMPVPTVQAAPVELPDPNDIDVEVKKPTKQAVVNQPA |
| Ga0224495_100165257 | F012017 | N/A | MRLWFSYPPMAQKRILIGTPLKGDIPKSYFRTSLQMATAQVPDVKLDWILLDGPAVQIARNEIAHYAVEQKFDELIFWDKDVLAMRNGEDVTGSALMRLIGHDRDIVTAVYSSRSLDTHWHVHPIKGEEPDEAGLQRVERASIGFCKIKVPVFKKIALANIDRAAMLVDPNKSPKLVPELFPMELRGRNTPQHRLQQIWAALSEVKNDDALRARIERELTIRYDEPNSYISEDFGFCDLARAAGYDIWMDTLMIMGHTASVTVPIETGKLMEMMSEPWRKEELAVIKQQMLEQMAAKKK |
| Ga0224495_100165258 | F057334 | N/A | MVTKRAVDEWLIEPDVEGAREYARISIYAEPEGLNIDGQGLIPWSQIESSRLTYTVHMKKRHAAR |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |