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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |
| Basic Information | |
|---|---|
| Taxon OID | 3300025922 Open in IMG/M |
| Scaffold ID | Ga0207646_10021313 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 (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) | 5989 |
| Total Scaffold Genes | 10 (view) |
| Total Scaffold Genes with Ribosome Binding Sites (RBS) | 5 (50.00%) |
| Novel Protein Genes | 4 (view) |
| Novel Protein Genes with Ribosome Binding Sites (RBS) | 0 (0.00%) |
| Associated Families | 4 |
| 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? |
|---|---|---|---|
| F013098 | Metagenome / Metatranscriptome | 274 | Y |
| F015750 | Metagenome / Metatranscriptome | 252 | Y |
| F020983 | Metagenome | 221 | N |
| F039878 | Metagenome | 163 | Y |
| Protein ID | Family | RBS | Sequence |
|---|---|---|---|
| Ga0207646_1002131310 | F020983 | N/A | AALGLAAIWDHPGYNVAASALALLTALLGYRAFERSTHRRLGGIQREHLILRLRQLPAPIEFRVVAVPDDEAVRFAQELLDVFVEAGWPAHGVYRALPANAASTGLFVAVQDGNFPSEEERRLLLALSEFGMYAVKSTSPKLTHPKALELLVGHRPTM |
| Ga0207646_100213132 | F013098 | N/A | MRTAWLAAIGVAAALVGGCARAPFVGYRNGPVTLYIGDVRHICAAGGSTNRGCTMRYPNGHIEVYCADGDYECLAHELRHVADPTWDHDLDHRNVSAR |
| Ga0207646_100213135 | F039878 | N/A | MGCAACRQLEGLGEGEGVKLGRNWALTVVVLTTLTLPGCAPLPKVEYWDGFFRHLHPPQYMFQVPDGWRPVTTSDYPLLGFNRRLFQRLDEAGRTAAMQRAELEMQSGDTGLISSRGAWIQVRSQSGPGGWYTFKDLRFGLSDREKQAIWQRLAASLIQAAPPAEKPNLTLESLDVVEDYDVRNVLRLRFTADVPRGSMHWTILEFYASSGVVTVAYVGIPEDREEGLAGLEVLARTFRF |
| Ga0207646_100213138 | F015750 | N/A | MDFGTIRLIIRRKLESGRLPLEKAARVLGRSATGEACDGCEMTIGTGQLAIDGLVRRPGSKAMQLHLRCFEIWTQERSTLLRERAERSTRRWALDEQRA |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |