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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |
| Basic Information | |
|---|---|
| Taxon OID | 3300025635 Open in IMG/M |
| Scaffold ID | Ga0208147_1000040 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_Fall_0.3_<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) | 40069 |
| Total Scaffold Genes | 57 (view) |
| Total Scaffold Genes with Ribosome Binding Sites (RBS) | 45 (78.95%) |
| Novel Protein Genes | 4 (view) |
| Novel Protein Genes with Ribosome Binding Sites (RBS) | 2 (50.00%) |
| Associated Families | 4 |
| Taxonomy | |
|---|---|
| All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → environmental samples → uncultured Caudovirales phage | (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? |
|---|---|---|---|
| F001599 | Metagenome / Metatranscriptome | 665 | Y |
| F003658 | Metagenome | 474 | Y |
| F014237 | Metagenome | 264 | Y |
| F075839 | Metagenome / Metatranscriptome | 118 | N |
| Protein ID | Family | RBS | Sequence |
|---|---|---|---|
| Ga0208147_100004012 | F014237 | GAGG | METFKNVMLRIVAVIAAESLGVIGAGSLVGIEVWQAAVLAGALGAATVIEALARFFLADGSLTADEINQAFAKVDKKAE |
| Ga0208147_100004017 | F003658 | N/A | MKQTNDLRGTPTFACICGCLMFEVTVMWDQETREVSWYDLAQKCKECGTVTTAPTPIDWMDCE |
| Ga0208147_100004036 | F075839 | AGAAG | MENTVKLTGKLKNIKTYNGSKGTMVTAWFDQREVSTFSNGGADRQVYVVGINVVALDDSTVGEILGLSRAGTEQTDLVTLSGRLVTRFDRRQDIAESQRRAPMVQFEVHAVEVN |
| Ga0208147_100004055 | F001599 | N/A | MVDGKFMQGVTDVMIHSGVEVTTTLRSQGNQIARQRDKVINHWYETSKAEWILWVDSDVVISVDTFKLLWDNKDVVERPILTGVYFTTDQPEESLMTPMPTLFNFVENNGNIGINRIHPLPKNKLMQVGAAGMGYVLMHRSVVDRIRAVLPDAPLFSDIGHGKNFMGEDIYFFALCDKADIPVYAHTGATVPHMKRFSFDEHYYDAFVGQKRK |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |