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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |
| Basic Information | |
|---|---|
| Taxon OID | 3300009038 Open in IMG/M |
| Scaffold ID | Ga0099829_10010393 Open in IMG/M |
| Source Dataset Name | Vadose zone soil microbial communities from the Eel River Critical Zone Observatory, Northern California, USA - CZOApr15con2H2.8 metaG |
| 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) | 6015 |
| Total Scaffold Genes | 7 (view) |
| Total Scaffold Genes with Ribosome Binding Sites (RBS) | 6 (85.71%) |
| Novel Protein Genes | 4 (view) |
| Novel Protein Genes with Ribosome Binding Sites (RBS) | 3 (75.00%) |
| Associated Families | 4 |
| Taxonomy | |
|---|---|
| All Organisms → cellular organisms → Bacteria → Bacteria incertae sedis → Bacteria candidate phyla → Candidatus Rokubacteria → unclassified Candidatus Rokubacteria → Candidatus Rokubacteria bacterium GWC2_70_16 | (Source: UniRef50) |
| Source Dataset Ecosystem |
|---|
| Environmental → Terrestrial → Soil → Unclassified → Unclassified → Vadose Zone Soil → Vadose Zone Soil And Rhizosphere Microbial Communities From The Eel River Critical Zone Observatory, Northern California To Study Diel Carbon Cycling |
| Source Dataset Sampling Location | ||||||||
|---|---|---|---|---|---|---|---|---|
| Location Name | USA: California, Eel River Critical Zone Observatory | |||||||
| Coordinates | Lat. (o) | 39.7291 | Long. (o) | -123.6419 | Alt. (m) | Depth (m) | Location on Map | |
| Zoom: | Powered by OpenStreetMap © | |||||||
| Family | Category | Number of Sequences | 3D Structure? |
|---|---|---|---|
| F013805 | Metagenome | 268 | Y |
| F025584 | Metagenome / Metatranscriptome | 201 | Y |
| F035065 | Metagenome / Metatranscriptome | 173 | Y |
| F037102 | Metagenome / Metatranscriptome | 168 | Y |
| Protein ID | Family | RBS | Sequence |
|---|---|---|---|
| Ga0099829_100103931 | F037102 | N/A | MPEEARMNELAPALTRQVLQSAMHQKILLRAAELVAMGWTRGTAARDATGQKVRSTAPQTTAWCVVGAVDRALYELLHLDVYDLLGLEVDAYDTAPCPFEVLRALRRPLQRVLGRSDLAHWNDHVCPAPAAAERLLREAAASIPRIGGITPSQ* |
| Ga0099829_100103932 | F035065 | GGAGG | MTDREVEAILDFLRHFGSFGCRQICVRRTEPTPRTPEDVGHFVLETLATWRAEGLDAERLYKVATIAIHFDAYKLPGIICMPACCRPWGAVEPACPPGPGRPLTGAQLQQALLRAVPIGPPPAPDAPLPDDLDEDLKRTGLSP* |
| Ga0099829_100103933 | F025584 | GAGG | VGDPRLDELRRWGVFWIHHEAEELRVHHRTTIPPEDARALVMTLLASGRVPPLQATLVDLEYTAARPVLQRFWGTACRRDEVVYLILFINDRCLVLALSR* |
| Ga0099829_100103937 | F013805 | AGGA | MAEAATGFLHVVRIGGDIDPVNAEYRIAFAPLDGRLRGRQARCEGLDALTDFLRQARVPIPEIERTWRTLARRRVHSIPHIALTPAQLEALGL* |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |