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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |
| Basic Information | |
|---|---|
| Taxon OID | 3300006484 Open in IMG/M |
| Scaffold ID | Ga0070744_10011550 Open in IMG/M |
| Source Dataset Name | Estuarine microbial communities from the Columbia River estuary, USA - metaG S.535 |
| 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) | 2624 |
| Total Scaffold Genes | 7 (view) |
| Total Scaffold Genes with Ribosome Binding Sites (RBS) | 5 (71.43%) |
| Novel Protein Genes | 4 (view) |
| Novel Protein Genes with Ribosome Binding Sites (RBS) | 4 (100.00%) |
| Associated Families | 4 |
| Taxonomy | |
|---|---|
| All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → environmental samples → uncultured Caudovirales phage | (Source: UniRef50) |
| Source Dataset Ecosystem |
|---|
| Environmental → Aquatic → Marine → Unclassified → Unclassified → Estuarine → Estuarine Microbial Communities From The Columbia River Estuary, To Analyze Effect Of Nutrient Fluxes, A Time Series |
| Source Dataset Sampling Location | ||||||||
|---|---|---|---|---|---|---|---|---|
| Location Name | USA: Columbia River Estuary | |||||||
| Coordinates | Lat. (o) | 46.234 | Long. (o) | -123.9135 | Alt. (m) | Depth (m) | Location on Map | |
| Zoom: | Powered by OpenStreetMap © | |||||||
| Family | Category | Number of Sequences | 3D Structure? |
|---|---|---|---|
| F049633 | Metagenome / Metatranscriptome | 146 | Y |
| F051131 | Metagenome / Metatranscriptome | 144 | N |
| F052593 | Metagenome / Metatranscriptome | 142 | Y |
| F073556 | Metagenome / Metatranscriptome | 120 | Y |
| Protein ID | Family | RBS | Sequence |
|---|---|---|---|
| Ga0070744_100115503 | F073556 | AGGAG | MIFDDKTDDELFRSIEAEVAKALSELRCAKKDLEQAEVRMKFALATIHYLKQRYEDMK* |
| Ga0070744_100115504 | F052593 | AGGA | MAFIFPAPGVAGVEATLEIEVSGDTSALAIPAMQDITVNNSNDVFTWTQLDEGSKLQIPTTATNSLELNIVLDQTAFFGDGVSSNVAINKGIFGLSKDKTLVSFALYLGDTSTGGAGKNLTGTGYITGLAPTASADAPVWVSPCTITVTGDYTVV* |
| Ga0070744_100115505 | F049633 | GAG | MRTELLTYLTAQLTGSILTSQELPWQEGTNPLYIKNPRRVYLDEPYTEQDTLFPTLGSLQINARITVVRWFLSVDAKNRNTDLDSALTILGGAKDITTITGVFTRLFDYTVTIDNDRVIYEGEYRFANLA* |
| Ga0070744_100115506 | F051131 | AGGA | MNSTFIYSYKTFVSFATYEDVTQRDSRVFEANEDLTETEINDYLEQASQRILTQIRNTAWWREYQRKLAQIVDPNLLPAVNPDYILARTQEFIDLNVYFALYEYVYPSVADFGNPESAEIAKIKFYKDSYNVLFDEVIEAGDWYDFTENGSISTADKMASIVNRVRVR* |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |