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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |
| Basic Information | |
|---|---|
| Taxon OID | 3300006916 Open in IMG/M |
| Scaffold ID | Ga0070750_10022736 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 - Viral MetaG DEL_Nov_24 |
| 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) | 3170 |
| Total Scaffold Genes | 8 (view) |
| Total Scaffold Genes with Ribosome Binding Sites (RBS) | 5 (62.50%) |
| Novel Protein Genes | 4 (view) |
| Novel Protein Genes with Ribosome Binding Sites (RBS) | 3 (75.00%) |
| Associated Families | 4 |
| Taxonomy | |
|---|---|
| All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium TMED56 | (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) | 39.12 | Long. (o) | -75.25 | Alt. (m) | Depth (m) | Location on Map | |
| Zoom: | Powered by OpenStreetMap © | |||||||
| Family | Category | Number of Sequences | 3D Structure? |
|---|---|---|---|
| F002594 | Metagenome / Metatranscriptome | 545 | Y |
| F004220 | Metagenome | 448 | Y |
| F062710 | Metagenome | 130 | N |
| F066824 | Metagenome / Metatranscriptome | 126 | N |
| Protein ID | Family | RBS | Sequence |
|---|---|---|---|
| Ga0070750_100227362 | F062710 | AGGAGG | MATIVNKKIKVKFKLIIPAEKEFEIIDEKMWLENKNDFVAAANDEDGQQILASDYVEMYGLSPVDNSYFEDDPNREVESIEKIIDENGKSI* |
| Ga0070750_100227363 | F004220 | AGGAG | MVEKDKLSWCYYFKSIPGWIRVEHVNSDEPFSINTRQTIVKEHYKKIADSGVEFYTCDDDDLDKEYGMYYGNLEFDPLDIMESRSGHTKMFHKEEGKWRQL* |
| Ga0070750_100227366 | F002594 | GGA | MAKIPTSRLNSAPKEYNEIDFDQLIEDLQDMIKILNSTYPKDIQDDQDRKQWFFMRGN* |
| Ga0070750_100227367 | F066824 | N/A | MLVHFRFYRCGYFAEGLVKSSDLDSATEALWKEHPKTFKWQDIQGPEDENRLTVEEWNEQSSGTKIEPEAEPRGTVGL* |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |