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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |
| Basic Information | |
|---|---|
| Taxon OID | 3300025896 Open in IMG/M |
| Scaffold ID | Ga0208916_10003745 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_Spr_0.19_<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) | 6057 |
| Total Scaffold Genes | 17 (view) |
| Total Scaffold Genes with Ribosome Binding Sites (RBS) | 12 (70.59%) |
| Novel Protein Genes | 5 (view) |
| Novel Protein Genes with Ribosome Binding Sites (RBS) | 4 (80.00%) |
| 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? |
|---|---|---|---|
| F005702 | Metagenome | 392 | Y |
| F005846 | Metagenome | 388 | Y |
| F010463 | Metagenome | 303 | N |
| F023833 | Metagenome | 208 | Y |
| F033350 | Metagenome | 177 | N |
| Protein ID | Family | RBS | Sequence |
|---|---|---|---|
| Ga0208916_1000374510 | F033350 | GGAGG | MSVDVDVPRVKWSMLEWKTIEEKPNNDEKVLMDIGREVCVGRFVDGSFVSRSWGHSENDVRLWASWPKAPKW |
| Ga0208916_1000374514 | F010463 | AGAAG | VIAHPQELVLAATIHRVKLCEDKLREFEQMVSTLTSTMAQNRAELASKGLEKFVIGVTTPLDIPKELVPTFGKHRAKRNRSHSTVVKRWTLWKHQLDSGMSMSELARAWGVHPTAILFAKKQNFIVRKAKGGSR |
| Ga0208916_100037454 | F005846 | N/A | MTSSIHPARPQASAVPASHEEFSDGFSIEGKLNGWRGLFNQKTGIGYNRHGKIASNHNLMVERLANAGIKAPYIDCEIMGQRTKTGKGTIVVMDAFDPANPKPYAERMKEIEHLEAVTFDVPQNKLLRFVQLAHHKINSIWEEMNFQNNKAGEVVWEGFVMKATDDGKYPYITNPSYCSPAWQKQRIRW |
| Ga0208916_100037455 | F005702 | GAGG | VIIFLVVFFGLLILQGVRIFAKHIDQQNYERRRFYLSVAADLDRLDKIVSEGNQPKQPELVLPTKNWVGRN |
| Ga0208916_100037459 | F023833 | AGGA | MKSHSDQLQDIINDAMSKAAALERERCAELVQKLADGTEDQVIQDILNEVVVALRRLTNE |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |