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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |
| Basic Information | |
|---|---|
| Taxon OID | 3300025585 Open in IMG/M |
| Scaffold ID | Ga0208546_1000337 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_D_<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) | 18280 |
| Total Scaffold Genes | 28 (view) |
| Total Scaffold Genes with Ribosome Binding Sites (RBS) | 13 (46.43%) |
| Novel Protein Genes | 5 (view) |
| Novel Protein Genes with Ribosome Binding Sites (RBS) | 1 (20.00%) |
| 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? |
|---|---|---|---|
| F036674 | Metagenome | 169 | Y |
| F038647 | Metagenome / Metatranscriptome | 165 | Y |
| F052551 | Metagenome / Metatranscriptome | 142 | N |
| F081255 | Metagenome | 114 | N |
| F088772 | Metagenome | 109 | N |
| Protein ID | Family | RBS | Sequence |
|---|---|---|---|
| Ga0208546_100033712 | F036674 | GGA | MAVRDFDPVQLESDFTGIQEQAGVTFSMGGSTVTGIWAISRNDFSAFEDQRREEIKYTIFFLTSQMASRPSISQTLVRSGVTYFVEQLRFDAEASGCEMDVCKVI |
| Ga0208546_100033717 | F052551 | N/A | MHGGEAADFLAVYAIAELLGKFASEVVQMPKTELDGWLAYLDHKNKLKNRNGR |
| Ga0208546_10003372 | F038647 | N/A | MQTPIVEVAVYPSTANVLSIRSITLGPPPSYFYQLENVVVVPPVAEQLDPTTGAVLIAAQDEQTIVTVLKNGNVNMTEAQWQNWGANLGPQGDDEYQLDAISANLGLTRA |
| Ga0208546_100033727 | F081255 | N/A | MTTEQFTELMLEIRAIRSALTQNKPAAPAVASKPAPTGPKDIPLPSEVIENAGDIAVHFGKNKGTPLSALSAKSCEWYAQEPEPRLRNDGTPFPPRPEDVLLRNAARTIVHRNRGTLPSPAVKLESAAPISEDVPF |
| Ga0208546_10003375 | F088772 | N/A | MSLLSFIASAAGGTILGGITQVLGSGVAELKEWSASKRRIAEIGALKEKQIAIAEVEAFAKAVEGTNGTGYTPPASAPNWMHGLMTIAAFSTQMVRPCMVAGACWYIWSRPAEQLAGLQPEILTVSFACVYFWLGVRHQLSTRK |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |