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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |
| Basic Information | |
|---|---|
| Taxon OID | 3300027873 Open in IMG/M |
| Scaffold ID | Ga0209814_10014653 Open in IMG/M |
| Source Dataset Name | Populus root and rhizosphere microbial communities from Tennessee, USA - Soil MetaG P. deltoides SBSDD1 (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) | 3129 |
| Total Scaffold Genes | 7 (view) |
| Total Scaffold Genes with Ribosome Binding Sites (RBS) | 4 (57.14%) |
| Novel Protein Genes | 4 (view) |
| Novel Protein Genes with Ribosome Binding Sites (RBS) | 2 (50.00%) |
| Associated Families | 4 |
| Taxonomy | |
|---|---|
| All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Xanthobacteraceae → Pseudolabrys → Pseudolabrys taiwanensis | (Source: UniRef50) |
| Source Dataset Ecosystem |
|---|
| Host-Associated → Plants → Rhizosphere → Unclassified → Unclassified → Populus Rhizosphere → Populus Root And Rhizosphere Microbial Communities From Tennessee, Usa |
| Source Dataset Sampling Location | ||||||||
|---|---|---|---|---|---|---|---|---|
| Location Name | USA: Tennessee | |||||||
| Coordinates | Lat. (o) | 35.8443 | Long. (o) | -83.9607 | Alt. (m) | Depth (m) | 0 | Location on Map |
| Zoom: | Powered by OpenStreetMap © | |||||||
| Family | Category | Number of Sequences | 3D Structure? |
|---|---|---|---|
| F001736 | Metagenome / Metatranscriptome | 644 | Y |
| F021628 | Metagenome / Metatranscriptome | 218 | Y |
| F031593 | Metagenome / Metatranscriptome | 182 | Y |
| F065930 | Metagenome | 127 | Y |
| Protein ID | Family | RBS | Sequence |
|---|---|---|---|
| Ga0209814_100146531 | F021628 | N/A | MLGRAAPLVIAFSLIAPAVQASPECLTKQEARAKWPTKPIYSHGSSRCWNDQPLSSRRSTTPPANISDSASKAHALDLSAPRPQAAKTEVFLPSITVNDIDLLNGAPMTGWRVLIGINDLVGINGQAPDPNNGVDGCCWPSLDAVKALIDGEK |
| Ga0209814_100146534 | F001736 | AGG | MGYNARNDEIRDNVTRMQREWEAQRGALATVRRFNATLSAKGYSWFWPKIAAALTSKHHWLIIACDSCGTVVDLDLHVKPRDPEASVRVALRDVRCPRCNGHGRPRIIALARHPSFEMTICVNF |
| Ga0209814_100146535 | F065930 | GGAG | MRMPILSYFLVIGTVLFGGLVLISTQLESKPLPVSQRIGVPPPFKAAPDDLPTPTWLERNQTF |
| Ga0209814_100146537 | F031593 | N/A | SEFRLLVEERRIIESIAGNENLEIQWRAATLKEAKAVVTQYHKYLKENSLVKSIFEPDILPPEESKRQN |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |