| Basic Information | |
|---|---|
| Taxon OID | 3300025925 Open in IMG/M |
| Scaffold ID | Ga0207650_10000028 Open in IMG/M |
| Source Dataset Name | Switchgrass rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS S6-3 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) | 236867 |
| Total Scaffold Genes | 202 (view) |
| Total Scaffold Genes with Ribosome Binding Sites (RBS) | 141 (69.80%) |
| Novel Protein Genes | 6 (view) |
| Novel Protein Genes with Ribosome Binding Sites (RBS) | 5 (83.33%) |
| Associated Families | 6 |
| Taxonomy | |
|---|---|
| All Organisms → cellular organisms → Bacteria → Acidobacteria | (Source: IMG/M) |
| Source Dataset Ecosystem |
|---|
| Host-Associated → Plants → Rhizosphere → Soil → Unclassified → Switchgrass 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? |
|---|---|---|---|
| F001223 | Metagenome | 743 | Y |
| F002250 | Metagenome / Metatranscriptome | 578 | Y |
| F003994 | Metagenome | 458 | Y |
| F005931 | Metagenome | 386 | Y |
| F007997 | Metagenome | 341 | Y |
| F011793 | Metagenome | 287 | Y |
| Protein ID | Family | RBS | Sequence |
|---|---|---|---|
| Ga0207650_10000028153 | F002250 | AGGAG | MYSAPIILPLDWTGRIYVLEDEKGQVIGTGSREVCETLMYMMRAGLSRASENAQVNARSNVRAAITI |
| Ga0207650_10000028178 | F005931 | GAGG | MINQKKTSEFIETSLVYLLSAAVAVGAFVLVWLVSLLLGSSPT |
| Ga0207650_1000002846 | F001223 | AGGAG | MKRFITVKSLILALLLAIIPVSASERPFASSGNGVATFITDGGGNVVGANLMLSGHGTHLGAFSGTGKIDFVPDPNDPNIVIVPGEITYVAADGDRLPTVIENGRMDLRTGIATGDMVFQNGTGRFAGVTGKAAIVVEQNFITGAYTFTLVGKINY |
| Ga0207650_1000002892 | F003994 | AGGAG | MSQSRRERGQNFLVQCSWCGSKIRDDKKEETHAVCLKCFYQILSNHLRAQKRTAYGEFVSDR |
| Ga0207650_1000002893 | F007997 | N/A | MRIRIERKHFSLKLALAAACVCVSAVSTFASSAVVIKPEVSRSHREELIKRLRVITGWNNLKFDDNGSLRLGDTQTSRGSESARILLKEAIAGPNVIVLEDASSRTDVAFCRVVRGRWIRDESNKPPAFVVLIDFTDFQQLSGDAEARAAFDAGWGLLHEIDHVVKDSEDARDAKAVGECEDHINRMRLEVGLPVRVDYFFSRAYLNADSNFNARYVRLSFEREAKRYWLVWDATTVGGLHGDSQRALVR |
| Ga0207650_1000002894 | F011793 | GGAGG | MSNWRKFAKRSVVLFCMLLAVSAAARSQTRENNRTLDEYDRTLNVMKNDAKAATERRRNLFPQINEDFQRIQMIHNEIVRMLQPDKGLNYDRLADLTGDMKKRSARLRENLALPQPEKTNTPPTQPETIDDVHLKKTIADLHDVIVTFVANPLFKNLGVVDAKVVDAAGENLVDIIDLSEKIKREAKLLSKPAKD |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |