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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_10017766 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) | 6548 |
| Total Scaffold Genes | 18 (view) |
| Total Scaffold Genes with Ribosome Binding Sites (RBS) | 15 (83.33%) |
| Novel Protein Genes | 9 (view) |
| Novel Protein Genes with Ribosome Binding Sites (RBS) | 8 (88.89%) |
| Associated Families | 9 |
| 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? |
|---|---|---|---|
| F000263 | Metagenome / Metatranscriptome | 1424 | Y |
| F000980 | Metagenome / Metatranscriptome | 814 | Y |
| F001125 | Metagenome / Metatranscriptome | 769 | Y |
| F002935 | Metagenome | 519 | Y |
| F009685 | Metagenome / Metatranscriptome | 314 | Y |
| F020171 | Metagenome / Metatranscriptome | 225 | Y |
| F022414 | Metagenome / Metatranscriptome | 214 | Y |
| F084239 | Metagenome / Metatranscriptome | 112 | N |
| F092053 | Metagenome / Metatranscriptome | 107 | N |
| Protein ID | Family | RBS | Sequence |
|---|---|---|---|
| Ga0244775_1001776610 | F020171 | GAGG | MAEQFIDTIAEHITGAIQQEIGEELFDQWSANNLDEGEAYAEFMFMRFASDELKQQYNEYYGYIEGDEFLL |
| Ga0244775_1001776611 | F084239 | GGAGG | LTKSSRFMEYLKIHLISLEQDLEQIDYVNGHHFYRVKQAEIENTRHILSVATDIMNESNERVYG |
| Ga0244775_1001776612 | F092053 | AGG | MKLSSEVKEDLQDQADQIIYFEAAMSNEDEAAKAVYERLVEIYKVAFKEGAKK |
| Ga0244775_1001776613 | F000263 | AGAAGG | MTPEDIGLPPHLQRMVNYDINGLDIMHGELKNLMLIWEKELEKAQEIEDESGEAMDSMERTRCEGFLDALTALYKLTYDLSFAIGVREENKKDGH |
| Ga0244775_1001776616 | F009685 | AGGAGG | MKMSDQYIDEVLNKAQKLLWGGSETENIEAHNLISKLIKDRMEDVSN |
| Ga0244775_1001776618 | F022414 | AGGCGG | MSKTQETKLAEQLANLADDHWFNPAIFGRYLAEQPLYTIDRVMEMVAHIISEQAKVYHLQRVRGTSSEGLLLANELNECIKAYQEMNVINNLTLPKSVVYNIKREVKVEPRPFGYTDIDKNPFDQV |
| Ga0244775_100177663 | F002935 | GAGG | MAERMKGYSGNVLDGKKLAKIANDIYRVQYSNEFSECTVDNLLLIELEEKNVFGDPKYAVLCSEGVGWEQDTYGCLEIPTNIGQMGLWNGRVFISVDTVKSCQTIFKEDVSDYIRVFGSRLDSNCSLWQSKMSVAPATILG |
| Ga0244775_100177664 | F000980 | N/A | MTKYQKYTWVCTSDCDALIEYTFKDGYGWPNGVMDLTCRCGTNCTLLSVEDATIPYTDSPLTTKEEQMEDATISTTVPDTYNPNLLVTYKVIRGYSDAEYATDKVTSIEWDLHNSRQNSKHNAVLQGKIDSVKDIITEAYGDSDDQETLRSIAEALDIALTRTIEWSATIEVSGTMELDLLADYDTDVESEIYDNLSVDSQNGNIEVIDTEVTNVREN |
| Ga0244775_100177668 | F001125 | GGCGG | MGDRANFGFKDRKGDTIFLYGHWAGHRMLENLANAVEQARPRWSDESYATRICVSQLVNEEWASETGWGLNVNELGDNEHKVPVIDWSNKTFTLMEADLQTEVFSQSLDAFVAKYSSQPSMV |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |