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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_10024089 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) | 5482 |
| Total Scaffold Genes | 16 (view) |
| Total Scaffold Genes with Ribosome Binding Sites (RBS) | 13 (81.25%) |
| 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 |
| F000441 | Metagenome / Metatranscriptome | 1136 | Y |
| F000852 | Metagenome / Metatranscriptome | 860 | Y |
| F000868 | Metagenome / Metatranscriptome | 853 | Y |
| F000980 | Metagenome / Metatranscriptome | 814 | Y |
| F001125 | Metagenome / Metatranscriptome | 769 | Y |
| F031497 | Metagenome / Metatranscriptome | 182 | Y |
| F038241 | Metagenome / Metatranscriptome | 166 | Y |
| F063705 | Metagenome / Metatranscriptome | 129 | Y |
| Protein ID | Family | RBS | Sequence |
|---|---|---|---|
| Ga0244775_1002408910 | F038241 | AGGAGG | MLGYSKEDIDQMSNAIHDAKLFYIMKSDVEQVDKDPLVEGLLKANDFLQGLWAEGYFD |
| Ga0244775_1002408911 | F063705 | GGAGG | LTKSSHFIEYMKIHLISLNQDWEATKNGEPLKDDEYDPSDDYFQGAIEATEHLLSVATDIMNDNERIY |
| Ga0244775_1002408912 | F000263 | GAGG | MNAEDIGLPPHLQRMVNAGVSGLDIMHGELKNLMLIAEQDLADALEQETLSEEAMDSMVRTECEGRLDILVELYQLTYQLSFAIGARTL |
| Ga0244775_1002408914 | F000441 | AGGA | MRMSDNYLNDQLNTAQKLLWGGSETENIEAHNIIAKLISDRIEQADLS |
| Ga0244775_1002408915 | F000852 | GGA | MTTKREYLKQQGITVGVRGRFSGAAKVALAEAVAKGLTFTAETPANKAK |
| Ga0244775_1002408916 | F031497 | AGGCGG | MSKTQEIKVAESLVNLMDDHWFNPTIFGRYLAEQPIYTIDRVMEMIVSVIAEQAKMYDVYSNQGTYTEGLMLANELNECIKAYQQDNNLVNLKLPSRSYKVKREEPAERTYQFGWREEKDPFSQP |
| Ga0244775_100240893 | F000980 | N/A | MSVGSCIILIMTNELVSSKYTFVCDPDECDCLIELTSSDGFGFPSGVTELTCPCGRKTTLVSVVNATIAPITQTKEEKMEPTTTPIPESYNSNLLVTYKVIRGFSDAEYATDKITSLEWDLHNGRQSQKTVGVLNSKIDSAKEIICEAYADSQDQDTLREIAEALGIELIKEVEWSASIEVSGTYSYNILENDYDLDLESEITDAIFADSHNGNIEINDQEVCNVREN |
| Ga0244775_100240897 | F001125 | AGGCGG | MGDRANFGFRDSKENIVFLYGHWAGHRMLEQLADAVAAAEPRWQDESYATRIAISNLIKDEWASETGWGIYVNQLGDNEHKVPIIDWKNKTFTLMEEDLETVVFSTSLEAFVAKYSSQLSMV |
| Ga0244775_100240899 | F000868 | AGGTGG | VSSFLENENEMLIDAIYSEIGEQLVEDWVNSNLDEGQLYADWCVADMSNSNYLKGRFNQFHNLSPTDNYYLQWDEEA |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |