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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |
| Basic Information | |
|---|---|
| Taxon OID | 3300027671 Open in IMG/M |
| Scaffold ID | Ga0209588_1000205 Open in IMG/M |
| Source Dataset Name | Vadose zone soil microbial communities from the Eel River Critical Zone Observatory, Northern California, USA - Rivendell_Oct2014_Saprolite_2_DNA_Rhizosphere_1 (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) | 15929 |
| Total Scaffold Genes | 22 (view) |
| Total Scaffold Genes with Ribosome Binding Sites (RBS) | 17 (77.27%) |
| Novel Protein Genes | 4 (view) |
| Novel Protein Genes with Ribosome Binding Sites (RBS) | 4 (100.00%) |
| Associated Families | 4 |
| Taxonomy | |
|---|---|
| All Organisms → cellular organisms → Archaea | (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? |
|---|---|---|---|
| F000611 | Metagenome / Metatranscriptome | 987 | Y |
| F009672 | Metagenome / Metatranscriptome | 314 | N |
| F023823 | Metagenome | 208 | N |
| F073400 | Metagenome | 120 | Y |
| Protein ID | Family | RBS | Sequence |
|---|---|---|---|
| Ga0209588_100020511 | F009672 | GGGGG | VAGIGFFFGQLTLFDITPFTLLLHLVLALAVSSLILNLRIKINSDRKPLLAIGVAVVVGSIWSSIQQWIGYFQTGMSSDIILVAGATLMDIAGGCVIYSLFHLNVLKKQS |
| Ga0209588_100020518 | F073400 | AGGTGG | MRSNQLKRFINSTVVGQLNDGHFFEGYVLDKAGSASIFEGDDQTPRQISAAQVKWLAKAVRYC |
| Ga0209588_100020519 | F023823 | AGG | MSEARAEARRGRIELGDEAKKGFDQALVDSTIAALDALGPTVKESIFLLLQRRNSISPDQIPKLVAEFVKALQDVLGPTSRVVEKLIIAGLIARKQVPASVAQGRRLLEVVGAVRLSQVSQS |
| Ga0209588_10002058 | F000611 | AGTAG | MQTNMNFPTYVFATVNSGRATKVVEELKRNSQIDIIAPVTGRYDLVLRLKPNTPHNIYQTVKEIREISDVRTTDTHTGFDGIQPTKKLESQMALGVSVLTCEHNTSESVIKQLSNIPGFIEASTVPGQFDIVALWQAKTSEDIVKNSVERVTSLQGIFKSETLLAYSPFFKA |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |