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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |
| Basic Information | |
|---|---|
| Taxon OID | 3300005288 Open in IMG/M |
| Scaffold ID | Ga0065714_10002185 Open in IMG/M |
| Source Dataset Name | Miscanthus rhizosphere microbial communities from Kellogg Biological Station, MSU, sample Rhizosphere Soil Replicate 2: eDNA_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) | 199213 |
| Total Scaffold Genes | 161 (view) |
| Total Scaffold Genes with Ribosome Binding Sites (RBS) | 104 (64.60%) |
| Novel Protein Genes | 4 (view) |
| Novel Protein Genes with Ribosome Binding Sites (RBS) | 4 (100.00%) |
| Associated Families | 4 |
| Taxonomy | |
|---|---|
| All Organisms → cellular organisms → Bacteria | (Source: IMG/M) |
| Source Dataset Ecosystem |
|---|
| Host-Associated → Plants → Rhizoplane → Unclassified → Unclassified → Miscanthus Rhizosphere → Miscanthus Rhizosphere Microbial Communities From Kellogg Biological Station, Michigan State University, Usa |
| Source Dataset Sampling Location | ||||||||
|---|---|---|---|---|---|---|---|---|
| Location Name | Kellogg Biological Station, Michigan State University | |||||||
| Coordinates | Lat. (o) | 42.406189 | Long. (o) | -85.40016 | Alt. (m) | Depth (m) | Location on Map | |
| Zoom: | Powered by OpenStreetMap © | |||||||
| Family | Category | Number of Sequences | 3D Structure? |
|---|---|---|---|
| F004612 | Metagenome / Metatranscriptome | 431 | Y |
| F012063 | Metagenome / Metatranscriptome | 284 | Y |
| F018806 | Metagenome / Metatranscriptome | 233 | Y |
| F073673 | Metagenome | 120 | Y |
| Protein ID | Family | RBS | Sequence |
|---|---|---|---|
| Ga0065714_10002185139 | F073673 | AGGAG | MSVSRRKFLTSSAVLSAALVLKPSTFAFGRNSLSNNPVNANSTHSYSREMFARCVGDIFRVRVGKQMVDLKLVALEDSQPTSHGITTGRIARTDCFSLRFHAVKRLPATNGFHSLKHSKLGNFDLFMIHSEEGAKHTAIINHLV* |
| Ga0065714_1000218529 | F004612 | GGA | MQSLVVEVSNPDTVHAIAEAAKRQGTTPEAAALELLEAAVLAQRPFEEIVEPIARSFDESGMSEEELDELVTQTKQAVRKERRRDK* |
| Ga0065714_1000218548 | F012063 | AGGAGG | MMKYFSLALLLAMAATVANGQSVSTNSSGAEVTRFSWSKERIGWQGDPFSGPIENFDEVRARTRNEKRIEDAKRGNSAEIDKIKREAKADAANIEAKHKDTPLRYVFVYKVTVKNSSNKAIKSIDWDYIFLERGTETEIGRQQFTSEEKIGSGKTKELSVTITKPPTKTISLTALNDNERGSLDGRVILVRIDYADGTSWQQP* |
| Ga0065714_1000218573 | F018806 | GAG | MRRSGERGSANLKFLIVITILGACAYAGYLYIPVAFQANAYKDLMQHYADVAATQGYAPSWVSEQLMKSGAEYDIPANAIITPAQRENRIEVRVQYVREIELPGYTYNYEFDQTVKSTAFLTFK* |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |