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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |
| Basic Information | |
|---|---|
| Taxon OID | 3300005468 Open in IMG/M |
| Scaffold ID | Ga0070707_100270047 Open in IMG/M |
| Source Dataset Name | Corn, switchgrass and miscanthus rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS K5-50-2 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) | 1654 |
| Total Scaffold Genes | 4 (view) |
| Total Scaffold Genes with Ribosome Binding Sites (RBS) | 2 (50.00%) |
| Novel Protein Genes | 3 (view) |
| Novel Protein Genes with Ribosome Binding Sites (RBS) | 2 (66.67%) |
| Associated Families | 3 |
| Taxonomy | |
|---|---|
| All Organisms → cellular organisms → Bacteria → Bacteria incertae sedis → Bacteria candidate phyla → Candidatus Rokubacteria → unclassified Candidatus Rokubacteria → Candidatus Rokubacteria bacterium | (Source: UniRef50) |
| Source Dataset Ecosystem |
|---|
| Environmental → Terrestrial → Soil → Loam → Agricultural Soil → Corn, Switchgrass And Miscanthus Rhizosphere → Corn, Switchgrass And Miscanthus Rhizosphere Microbial Communities From Kellogg Biological Station, Michigan, Usa |
| Source Dataset Sampling Location | ||||||||
|---|---|---|---|---|---|---|---|---|
| Location Name | USA: Michigan: Kellogg Biological Station | |||||||
| Coordinates | Lat. (o) | 42.3948 | Long. (o) | -85.3738 | Alt. (m) | Depth (m) | Location on Map | |
| Zoom: | Powered by OpenStreetMap © | |||||||
| Family | Category | Number of Sequences | 3D Structure? |
|---|---|---|---|
| F025584 | Metagenome / Metatranscriptome | 201 | Y |
| F031805 | Metagenome | 181 | Y |
| F035065 | Metagenome / Metatranscriptome | 173 | Y |
| Protein ID | Family | RBS | Sequence |
|---|---|---|---|
| Ga0070707_1002700471 | F031805 | N/A | IGRMLTRFEEPERSLLRSSLARVGLAKGTVVAPAIERFEEWRTWLQCASEMSTVLLQAKVSEALDALPRGREPAPPGERFRRAVLAAMPDIEAMELVERFFHLGKRVVGSPSPIAIFLAGCRECLPEWELQAAQRPRGSSATSDSSVCRRGQTSA* |
| Ga0070707_1002700473 | F025584 | GAGG | VGDPRLDEPRRWGVFWSHHEAEELRVHHRATIPADDARAVVVTLLASGRVPPLQATLLALEDAAGRPVLQRFWGTACRHDAVVYLILFINERCLVLALSG* |
| Ga0070707_1002700474 | F035065 | GGAGG | MTDREVEAISHFLRHFGSFGCRQICVRRTEPKPRTPEDVGRFVLETLASWRAEGLDAQRLYKVATIAIHFDPYKLPGAICMPACCRPWGEMEPACPPGPGRPLTVAQLQQALLRAVPIGPAPAGCAAARRPGRGLEAHGLGSVTRGRS |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |