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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |
| Basic Information | |
|---|---|
| Taxon OID | 3300005940 Open in IMG/M |
| Scaffold ID | Ga0073913_10003258 Open in IMG/M |
| Source Dataset Name | Groundwater microbial communities from the Columbia River, Washington, USA, for microbe roles in carbon and contaminant biogeochemistry - GW-RW metaG T4_25-Nov-14 |
| 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) | 2147 |
| Total Scaffold Genes | 5 (view) |
| Total Scaffold Genes with Ribosome Binding Sites (RBS) | 1 (20.00%) |
| Novel Protein Genes | 3 (view) |
| Novel Protein Genes with Ribosome Binding Sites (RBS) | 1 (33.33%) |
| Associated Families | 3 |
| Taxonomy | |
|---|---|
| All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Flavobacteriia → Flavobacteriales → Flavobacteriaceae → unclassified Flavobacteriaceae → Flavobacteriaceae bacterium | (Source: UniRef50) |
| Source Dataset Ecosystem |
|---|
| Environmental → Terrestrial → Soil → Sand → Unclassified → Sand → Groundwater Microbial Communities From The Columbia River, Washington, Usa |
| Source Dataset Sampling Location | ||||||||
|---|---|---|---|---|---|---|---|---|
| Location Name | USA: Columbia River, Washington | |||||||
| Coordinates | Lat. (o) | 46.372 | Long. (o) | -119.272 | Alt. (m) | Depth (m) | Location on Map | |
| Zoom: | Powered by OpenStreetMap © | |||||||
| Family | Category | Number of Sequences | 3D Structure? |
|---|---|---|---|
| F034567 | Metagenome / Metatranscriptome | 174 | Y |
| F058818 | Metagenome / Metatranscriptome | 134 | N |
| F066775 | Metagenome / Metatranscriptome | 126 | N |
| Protein ID | Family | RBS | Sequence |
|---|---|---|---|
| Ga0073913_100032582 | F034567 | AGG | MEYIFNYYDYINHYGNRMYAIAGVKVMPVSYSSILFTGSYDECMERLDPKGLEGSIEDIYHRVAFPK* |
| Ga0073913_100032583 | F058818 | N/A | MMEELLEKQTILSDIAGELYGELWIMNEKFWGSPTERELQEVTMSLLNLGHSVENTPEGDEAAKIVAKKFGFKLPPED* |
| Ga0073913_100032584 | F066775 | N/A | MTKNESLEIIKAALIEKRDAIQLACSALEKEAKEEKKAIFEWLFADELVSYAGVAIEVGYSGLYFKIGNKEIGSINERSYWRAEDKDKKYYFNTYATTCEDEFEFRRLIFNGRVAERMLNDMDSLKEAFDTPFSKKEELEALSLEFHILSGEIKQKDYQMQEARKQDIIDKLNGEGVEWTSGKSFEFNRQWSSYLVKKLKINKATKSGKTVDLEVTYALYDWSYDDEGNSKRVEKEDRIATHEGIKMEYVMGNFRDLIYI* |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |