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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |
| Basic Information | |
|---|---|
| Taxon OID | 3300026187 Open in IMG/M |
| Scaffold ID | Ga0209929_1039056 Open in IMG/M |
| Source Dataset Name | Salt pond water microbial communities from South San Francisco under conditions of wetland restoration - Salt Pond MetaG SF2_C_H2O_MG (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) | 1394 |
| Total Scaffold Genes | 7 (view) |
| Total Scaffold Genes with Ribosome Binding Sites (RBS) | 6 (85.71%) |
| Novel Protein Genes | 5 (view) |
| Novel Protein Genes with Ribosome Binding Sites (RBS) | 4 (80.00%) |
| Associated Families | 5 |
| Taxonomy | |
|---|---|
| All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Flavobacteriia → Flavobacteriales → Flavobacteriaceae → Winogradskyella → unclassified Winogradskyella → Winogradskyella sp. | (Source: UniRef50) |
| Source Dataset Ecosystem |
|---|
| Environmental → Aquatic → Non-Marine Saline And Alkaline → Saline → Unclassified → Pond Water → Salt Pond Water, Soil And Salt Crust Microbial Communities From South San Francisco Under Conditions Of Wetland Restoration. |
| Source Dataset Sampling Location | ||||||||
|---|---|---|---|---|---|---|---|---|
| Location Name | South San Francisco, USA | |||||||
| Coordinates | Lat. (o) | 37.4973 | Long. (o) | -122.1295 | Alt. (m) | Depth (m) | 0 | Location on Map |
| Zoom: | Powered by OpenStreetMap © | |||||||
| Family | Category | Number of Sequences | 3D Structure? |
|---|---|---|---|
| F004603 | Metagenome | 431 | Y |
| F009521 | Metagenome / Metatranscriptome | 316 | Y |
| F027830 | Metagenome / Metatranscriptome | 193 | N |
| F062678 | Metagenome | 130 | N |
| F105890 | Metagenome | 100 | Y |
| Protein ID | Family | RBS | Sequence |
|---|---|---|---|
| Ga0209929_10390561 | F009521 | N/A | MKYQIIIKNGSLKGWKAFKGPCLATMQDKYKRLELQGHKLKLIRGK |
| Ga0209929_10390564 | F062678 | AGGCGG | MTQQDQNALKKLKRKYPGLPVVGGPKDWERIEKMLSKKDLELYKLITKRGQD |
| Ga0209929_10390565 | F105890 | AGGGGG | MTILIHKTEALKLAYKVNKLTVEELWDFVDELKKLEDVANTTGQGNFNFSAVKQRIAFNEYKED |
| Ga0209929_10390566 | F004603 | AGGA | MIFSININGNIVDWCYNLDCQDKQYHKTWIPKSRDIQIITKDLNGLTVSEVKKIILEDIQPDITMVKEHNNKLARARRVNQ |
| Ga0209929_10390567 | F027830 | AGGAG | MNNMTFNTAFGKYSAHYRDQGFGGELPYISETYSRATGEGGYLLRDENDRHIAYITKEGKVQ |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |