 |
Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |
| Basic Information | |
|---|---|
| Taxon OID | 3300024346 Open in IMG/M |
| Scaffold ID | Ga0244775_10001764 Open in IMG/M |
| Source Dataset Name | Whole water sample coassembly |
| 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) | 24551 |
| Total Scaffold Genes | 15 (view) |
| Total Scaffold Genes with Ribosome Binding Sites (RBS) | 11 (73.33%) |
| Novel Protein Genes | 5 (view) |
| Novel Protein Genes with Ribosome Binding Sites (RBS) | 4 (80.00%) |
| Associated Families | 5 |
| 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? |
|---|---|---|---|
| F001106 | Metagenome / Metatranscriptome | 776 | Y |
| F003408 | Metagenome / Metatranscriptome | 488 | Y |
| F009961 | Metagenome / Metatranscriptome | 310 | Y |
| F012456 | Metagenome / Metatranscriptome | 280 | Y |
| F070122 | Metagenome | 123 | N |
| Protein ID | Family | RBS | Sequence |
|---|---|---|---|
| Ga0244775_1000176410 | F009961 | GGAGG | MTVDYKIDAMFELRKFLWKELKDSFIFDAYDYYSDNLGKEIIPIIPVQQSPEMDQFLNGKKHIIYDKIGMSYEENWLICCEKILFTIYSTDVTEIYEIRNLMTDLFRRMDESAVDVNDQNRPSKLKFHSIHIVETSPIDPSIELKGFMSTDVILEVKYSRTTDKSGRFD |
| Ga0244775_1000176411 | F012456 | GGAG | LDSSVALIQTASGLERLMAGSVPGVIKDSTVAQISAFLYYEATVLSKLTTNESFKNLFKTTIFNQIEKDFGLYMDSQARTKPRSLHHVYEWNKTGIPSSRLFNLYAIEMEGLSFRINYNFKLSKSSVPTKNKKQKKKYVFGNKADVMEAGMPIVIRPRSAERLVFEMDGETVFMPKGTSVTVRKPGGAQASHQFSLSYGRFFGGQLVNSSIKSSGLQRIFNLKMARALGVPMNIKKVQYSFTPGKIRIQADASLDAAFGGSL |
| Ga0244775_1000176412 | F070122 | N/A | MSLATSLMPMKLDIYLQLDTQDENTGAIKKEWIFTRSVPCSAKGMISNSGTGRGGDKQTFNNKYMNEQMLEIRTPDPITYREKVTNVRDMNGNVVWKEINYPNNTPTVFEVISSTPITDPFGNVLAYNSIAKRSENQEIGF |
| Ga0244775_1000176414 | F001106 | AGGAG | MSFDTLKVAELKVIATDFAVDTEGLKNKKDIIAALAEEGVTWSVYQSTVEAIERDTEEIEILPKFDPKAQAEDTLLVRMTRDNHRYDIHGYTFTKDHPFIAMSEDDAQKIFDTEEGFRLATPKEVQDFYN |
| Ga0244775_100017647 | F003408 | AGAAG | MPEMVQTFKSMQKTEEEKRKFLALIQGVELNESSNENGEGSTFEDVRRRALGINASADDVVSLQGGLAAEAGFGVGAGLGYSIE |
| ⦗Top⦘ |
|
Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |