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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_1007075 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) | 3938 |
| Total Scaffold Genes | 12 (view) |
| Total Scaffold Genes with Ribosome Binding Sites (RBS) | 9 (75.00%) |
| 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 → Proteobacteria → Betaproteobacteria → Nitrosomonadales → Methylophilaceae → unclassified Methylophilaceae → Methylophilaceae bacterium | (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? |
|---|---|---|---|
| F000671 | Metagenome / Metatranscriptome | 945 | Y |
| F002060 | Metagenome / Metatranscriptome | 597 | Y |
| F042904 | Metagenome / Metatranscriptome | 157 | Y |
| F074876 | Metagenome / Metatranscriptome | 119 | Y |
| Protein ID | Family | RBS | Sequence |
|---|---|---|---|
| Ga0208784_100707510 | F000671 | AGGA | MEKILCYSCNKSKNKLNAKKSALLPINLLMCETCITSRLEPRWVVILAGRSNGPDSVREFILKKKYIGNEISASELLI |
| Ga0208784_100707511 | F074876 | AGG | VKEWYEVINVVFLHDIGVYGTVDQMGAFASVVKYTKDDCEYEELLENDEFAIVDEIVFHRVEEE |
| Ga0208784_10070755 | F042904 | GGA | MEKQLTVLESIIEEVATDLYNKWCSAMPEAEKNEIAFRAMATNSKETTLFVIQNFMDKFNAAADELKDK |
| Ga0208784_10070759 | F002060 | N/A | MNIDYTAIIIAIAAAVLSGMGTAIVAGLKENKREKTRQQEREQDHLKLEIKDLKIQLYQVERDLIEWKDKYYNAIQELIGVKAELEETLLKLSILDLDIKSD |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |