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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_10000210 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) | 10325 |
| Total Scaffold Genes | 22 (view) |
| Total Scaffold Genes with Ribosome Binding Sites (RBS) | 3 (13.64%) |
| Novel Protein Genes | 5 (view) |
| Novel Protein Genes with Ribosome Binding Sites (RBS) | 2 (40.00%) |
| Associated Families | 5 |
| Taxonomy | |
|---|---|
| All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → environmental samples → uncultured Caudovirales phage | (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? |
|---|---|---|---|
| F002909 | Metagenome | 521 | Y |
| F014117 | Metagenome / Metatranscriptome | 265 | Y |
| F038673 | Metagenome / Metatranscriptome | 165 | N |
| F045761 | Metagenome | 152 | N |
| F068841 | Metagenome / Metatranscriptome | 124 | N |
| Protein ID | Family | RBS | Sequence |
|---|---|---|---|
| Ga0073913_1000021011 | F038673 | N/A | MWFLLFLIPLTSNGQVLIDTCVIQEANHYLVKGAIARRQVTILRKIVTSDSVIIDQQDSIIVKQKTNIAYLKDDNNALVKRNKAISRTLISYKMLSVVLTILSVVMWLK* |
| Ga0073913_1000021012 | F002909 | N/A | VAQIDLSKLPDALDTYLGDATQGSLLQQIIVEWWNKKVIPPIQANLDANGTNASSKLRQSFAPGNITKSPTSINTILVAEDYWEFVEYGRKPTRGGHIEGTPYLWQSLKTWISQKGIKPAEGQTYDSLAKAIAKKIHRSGTKARPFLEKAFTESIQMELVNELNARFGDLIFSEDIKI* |
| Ga0073913_1000021014 | F068841 | AGGAGG | MIELAINGWILTVKGRICEEKYVYTIEAVDNWLIANHIEELDDYVNSTTSGFGDCCIKEFDGINSEAFFNAEPTKFQVLFMIGQRTNFF* |
| Ga0073913_1000021019 | F045761 | AGG | MIQNYLIIGMAILFVITLLQLHKTSERENELLEKISNKNRLIWDYETELLEIRSKIAEANDRAKTWELQATFLKELNNDKPKSTRGQSINK* |
| Ga0073913_100002103 | F014117 | N/A | MKHLNNDTTAAIATAISGSSAVLHFANTWQPVFALALALVGIVSGLFAIRYYAKKIDAIDGKGK* |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |