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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |
| Basic Information | |
|---|---|
| Taxon OID | 3300025585 Open in IMG/M |
| Scaffold ID | Ga0208546_1000169 Open in IMG/M |
| Source Dataset Name | Aqueous microbial communities from the Delaware River and Bay under freshwater to marine salinity gradient to study organic matter cycling in a time-series - DEBay_Sum_0.19_D_<0.8_DNA (SPAdes) |
| 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) | 30389 |
| Total Scaffold Genes | 43 (view) |
| Total Scaffold Genes with Ribosome Binding Sites (RBS) | 24 (55.81%) |
| Novel Protein Genes | 5 (view) |
| Novel Protein Genes with Ribosome Binding Sites (RBS) | 3 (60.00%) |
| Associated Families | 5 |
| Taxonomy | |
|---|---|
| All Organisms → cellular organisms → Bacteria | (Source: UniRef50) |
| Source Dataset Ecosystem |
|---|
| Environmental → Aquatic → Marine → Coastal → Unclassified → Aqueous → Aqueous Microbial Communities From The Delaware River/Bay And Chesapeake Bay Under Freshwater To Marine Salinity Gradient To Study Organic Matter Cycling In A Time-Series |
| Source Dataset Sampling Location | ||||||||
|---|---|---|---|---|---|---|---|---|
| Location Name | USA: Delaware Bay | |||||||
| Coordinates | Lat. (o) | 39.283 | Long. (o) | -75.3633 | Alt. (m) | Depth (m) | Location on Map | |
| Zoom: | Powered by OpenStreetMap © | |||||||
| Family | Category | Number of Sequences | 3D Structure? |
|---|---|---|---|
| F004049 | Metagenome / Metatranscriptome | 455 | Y |
| F004232 | Metagenome / Metatranscriptome | 447 | Y |
| F005740 | Metagenome / Metatranscriptome | 391 | N |
| F012040 | Metagenome / Metatranscriptome | 284 | N |
| F012111 | Metagenome | 283 | N |
| Protein ID | Family | RBS | Sequence |
|---|---|---|---|
| Ga0208546_100016922 | F005740 | GAG | MKLIVADIQSLIARVIGVCSDDPRVYEYINQACRRLLHKGLWAGAYGRFTIHPTSGCITWPRQIETIEAVADCCAVGTVRNQWFEFQETGFGLVNGGGQVCLGNQLLDRGTVVSYRDMSGGTNSYIRVYPGDASDVGKTITLQGTDNNGQWIRTQSGGVWIDGEKLTLALPYVQSTKKFTSLTGVIRQTTNTVSRLYEYDATSLAETDIAVYDPDETLPQYRRSFLGNRCNADENKPVTVMAKMRHINASTPNDYLIPPCADAIKLMVQAIRKEENDLLNEAVAYEAKAVQAVQEQTMQYLGDAVATIRMVGAGQSGGGLYQWF |
| Ga0208546_100016924 | F012111 | N/A | MSERAPRRYTDGTVTFEGGIDTGVMPSEIDKNQVAFAINSSFREGFVSPRPGYVQKDYDICLTITADNAIVTADATNVTADGWSEECYGPDEIGGVFQCALPYIADNGRTYILALISGEVWLYDTQLNTFINLSTTDDLKNPSNLLDGWMVQAENFVVIQDGFSKPLIFNGANLRRAEDNEIKCGRVMAYVNGRIWYALPDGFSFRATDIVYGDGTRASVLKETENTFLNEGGDFAVPSDSGGITAMAVPGDPDTSLGQGPLLVFTPRYVFSVQAPVNRDTWKNLTYPIQAISLLTSGALGSRSAITVNGDVFYRAVDGIRSFIIARRSFTDWGNTPISGEIVNIVENDQTNLLWSGSAVVFDNRLLMTTQPVYDNDGVYHRALGVLDFDLITSMRKKMPPSWAGIWTGLKILQIVKTENIYGDQCWIFARGENGNIQLWEVTKSGKFDVNLSESKEIQWLFQTRAYNFEIPFGLKRLDSGDIFIDQLEGDVSFEAKYKPDQYPGWIEWAEWSECARVNLCGFPSSCLPITNYQPQYRPKMRLPTPSDTVCNSTISTPTRNLFEVQMQLLVTGYCRIKSVRVHAYDVQEQVVGDCRSVSVPCSILESCDLNMFFYSSE |
| Ga0208546_10001693 | F004049 | GAG | MEQGEGAEAMNIPIGPAAFVFKHRKTGQVVVAPSERWHEYYDNKENWEHTASVNACMAIEYLINVKPKERNRWIRSLTEKI |
| Ga0208546_100016934 | F012040 | AGG | MNLPEINLSQWISDGQNAELARIVSNPIMRMALRIVAESMPIPMPGHGSKESDIIFAAGVTAGYAHCLENLRKLSANEVVKEPEATFEKQY |
| Ga0208546_10001699 | F004232 | N/A | MKTIVACDPGVNGGFAIKTQDGIILLPMPESVPDMAQLISGFKTTESHFWIEKLPKFVSKLTPASAVATLHENYGICQGLAYAYGYALHRVEPKIWQEPLGLGGKKSCATGPEWKRKLKSKAQELYPSQDVTLKNCDALLILHYALGGGR |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |