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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |
| Basic Information | |
|---|---|
| Taxon OID | 3300025732 Open in IMG/M |
| Scaffold ID | Ga0208784_1006519 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_N_>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) | 4124 |
| Total Scaffold Genes | 9 (view) |
| Total Scaffold Genes with Ribosome Binding Sites (RBS) | 2 (22.22%) |
| Novel Protein Genes | 3 (view) |
| Novel Protein Genes with Ribosome Binding Sites (RBS) | 1 (33.33%) |
| Associated Families | 3 |
| Taxonomy | |
|---|---|
| All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Epsilonproteobacteria → Campylobacterales → Campylobacteraceae → Campylobacter → Campylobacter coli | (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? |
|---|---|---|---|
| F013634 | Metagenome / Metatranscriptome | 269 | Y |
| F025485 | Metagenome / Metatranscriptome | 201 | Y |
| F031456 | Metagenome / Metatranscriptome | 182 | Y |
| Protein ID | Family | RBS | Sequence |
|---|---|---|---|
| Ga0208784_10065193 | F031456 | N/A | MALIGSFPASSSAVFNLDFLPEKLLLIDVAASSQGLSNLSVVTSGTQLMSITNVDRLTALAKFDSGAVLQDPSVANISQAAGYLRLATGRINKATTITGTNPLVAAVPAYAASTNISNVARRAVEQSINPSANATFDNFEALFFLPTNILRATITFANGYTDEYTVQELAALYANYHVADMDGYLQGQVCIDADSGAGQISQVTLFNGSGGSTVVLKSDYVQF |
| Ga0208784_10065194 | F013634 | GAG | MPVQLAPLVGAGLGALQQSKIQKAMEGTKTYSKPKTMFGKLIGGISGRSAAAEVSATAPKTEPISSKVLLAMAPNQYKQTPITGGITFGQEAKARPWLPYVVVAAIVAIFYVLRRKGGRRRR |
| Ga0208784_10065196 | F025485 | N/A | MENARKFLPLIIGGVVAIVVFFISRKVSKSSGNNQERSEILEKAREAKLAKSILKKSENEEGTSDIG |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |