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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |
| Basic Information | |
|---|---|
| Taxon OID | 3300012207 Open in IMG/M |
| Scaffold ID | Ga0137381_10003570 Open in IMG/M |
| Source Dataset Name | Vadose zone soil microbial communities from Sagehorn Ranch, Mendocino, California, USA - Sage2_L_115_16 metaG |
| 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) | 11104 |
| Total Scaffold Genes | 17 (view) |
| Total Scaffold Genes with Ribosome Binding Sites (RBS) | 15 (88.24%) |
| Novel Protein Genes | 4 (view) |
| Novel Protein Genes with Ribosome Binding Sites (RBS) | 3 (75.00%) |
| Associated Families | 4 |
| Taxonomy | |
|---|---|
| All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium | (Source: UniRef50) |
| Source Dataset Ecosystem |
|---|
| Environmental → Terrestrial → Soil → Unclassified → Unclassified → Vadose Zone Soil → Vadose Zone Soil And Rhizosphere Microbial Communities From The Eel River Critical Zone Observatory, Northern California To Study Diel Carbon Cycling |
| Source Dataset Sampling Location | ||||||||
|---|---|---|---|---|---|---|---|---|
| Location Name | USA: California | |||||||
| Coordinates | Lat. (o) | 39.5673 | Long. (o) | -123.4758 | Alt. (m) | Depth (m) | Location on Map | |
| Zoom: | Powered by OpenStreetMap © | |||||||
| Family | Category | Number of Sequences | 3D Structure? |
|---|---|---|---|
| F002349 | Metagenome / Metatranscriptome | 568 | Y |
| F014204 | Metagenome | 265 | Y |
| F040993 | Metagenome | 160 | Y |
| F053852 | Metagenome / Metatranscriptome | 140 | Y |
| Protein ID | Family | RBS | Sequence |
|---|---|---|---|
| Ga0137381_1000357011 | F053852 | N/A | VIAWHRDKGLTVSRLNQFDHTVVLQSENVSYESITLGKQKWKIVAKVLWWIGKSP* |
| Ga0137381_1000357012 | F014204 | AGG | MEYSIDVENVKREMVDQHYKTKVVYTFAISNGFAKTHADVVLTEAGVDIIEQKGKDPQTAAKIVLERLLKQGRDPFETQILLTVPYGHAEYFARFGNYETLPTPAD* |
| Ga0137381_1000357015 | F002349 | GGAG | MIVCFDQCNYCRSPIVSGQRWVREKIYEPALNGRDPSYHRYHRYHAEPFAGQEGSCWEKHEMEREIVRTTAYAA* |
| Ga0137381_100035705 | F040993 | GGA | MQLLLSRARRVNHLWLHRTQELARESIGLSTKVDGFAMADGFVLIGVGSNKQLVQWTAEAAWRGIIRVRERARHSRGCKAVRFLIAVWLMAGGLLALSVWRGIDLPTVLLIAVFSGAAGHALAQPFENALGRWLAVPAWHDEDARTFCLEVEPVEFPEWLWWQGGQGFIVRRIPEEEAPKD* |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |