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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |
| Basic Information | |
|---|---|
| Taxon OID | 3300034818 Open in IMG/M |
| Scaffold ID | Ga0373950_0000013 Open in IMG/M |
| Source Dataset Name | Populus rhizosphere microbial communities from soil in West Virginia, United States - GW9791_WV_N_3 |
| 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) | 344674 |
| Total Scaffold Genes | 303 (view) |
| Total Scaffold Genes with Ribosome Binding Sites (RBS) | 180 (59.41%) |
| 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 → Proteobacteria | (Source: IMG/M) |
| Source Dataset Ecosystem |
|---|
| Host-Associated → Plants → Rhizosphere → Soil → Unclassified → Rhizosphere Soil → Populus Rhizosphere Microbial Communities From Soil In West Virginia And Oregon, United States |
| Source Dataset Sampling Location | ||||||||
|---|---|---|---|---|---|---|---|---|
| Location Name | USA: West Virginia, United States | |||||||
| Coordinates | Lat. (o) | 39.6589 | Long. (o) | -79.9058 | Alt. (m) | Depth (m) | 0 | Location on Map |
| Zoom: | Powered by OpenStreetMap © | |||||||
| Family | Category | Number of Sequences | 3D Structure? |
|---|---|---|---|
| F003374 | Metagenome / Metatranscriptome | 491 | Y |
| F003791 | Metagenome / Metatranscriptome | 468 | Y |
| F024120 | Metagenome | 207 | Y |
| F036911 | Metagenome / Metatranscriptome | 169 | Y |
| Protein ID | Family | RBS | Sequence |
|---|---|---|---|
| Ga0373950_0000013_104266_104787 | F024120 | GGCGG | VSARRWILAGALAAAPALFGACDDVSHQDIGDEINILVRRDDPLVPPATVRLAAYKRRAIPQIETALHTSAPTGRLHLLAALDRIGDEEGVPVLRHVAIYDITPDVRQAAEGVLSRWAGGGETSRAIRARAAVEEIARRRAAGEGPLLFGDGGVPGAPSTVGAPEPVGATSRK |
| Ga0373950_0000013_13471_13743 | F036911 | GGAGG | MRESEGHLDKQSEIRHLLRTVKTSLELAIIARAPMELLNRLGRISGLLDAVSQLPTEEGPAQALMPSLKSDGVAAVDAWEKWQRAHTPAA |
| Ga0373950_0000013_322796_323014 | F003791 | AGGA | MDDRATTPVTVEMNGTAARLLVKLMADLGTEEPMAVLTRAMGLLEQAMGAKSRGQRLGLYDPPSGRFMDLVI |
| Ga0373950_0000013_341358_341720 | F003374 | AGGA | MQWPVVELAEWEELRQCPDCGRAWLAVWPEELEAGMILCRPEPPTAKRLRDIDRASTLRAYCLMRLEEHFGELRERKLDCRKVGCGRKRLSVASYCIEHLIAERFGRHLAKLDAAPAPRH |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |