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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |
| Basic Information | |
|---|---|
| Taxon OID | 3300025445 Open in IMG/M |
| Scaffold ID | Ga0208424_1000004 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) | 39484 |
| Total Scaffold Genes | 58 (view) |
| Total Scaffold Genes with Ribosome Binding Sites (RBS) | 54 (93.10%) |
| Novel Protein Genes | 5 (view) |
| Novel Protein Genes with Ribosome Binding Sites (RBS) | 3 (60.00%) |
| Associated Families | 5 |
| 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 |
| F001706 | Metagenome / Metatranscriptome | 648 | Y |
| F002301 | Metagenome / Metatranscriptome | 573 | Y |
| F084182 | Metagenome / Metatranscriptome | 112 | Y |
| F088554 | Metagenome | 109 | Y |
| Protein ID | Family | RBS | Sequence |
|---|---|---|---|
| Ga0208424_100000413 | F001599 | AGTAGG | MAEETVSLVWCDNGMVDGKFAQGIADVLLKSGVKFETTLRSHGNQIARQREESINYWYENNKSDWLFWVDSDVVVSPEVFLRLWNKKDALTKPLLTGVYFTTNNPEEPLMIPLPTVFKFVDNDEGFALERIHPLPKDALIKVDAAGMGLVLMHRSVVERIRKVVPDATMFQELGTGKKFIGEDIFFFALCNQAEVPLWCDTGATAPHMKRFSFDEHYYNAMTKGR |
| Ga0208424_100000420 | F001706 | N/A | MKHWEHHPEYVEGCFGCKASTLQMNPGDAKRDIPDKKWNAELQAYRDARAQGIQPSGTRMKDIQEAHQASEVLGKPYNADSMPKAKQITKGVAEVMKEIGK |
| Ga0208424_100000437 | F084182 | AGGAG | MRDQDIMSNITEISKWLDSLIVEVNRINEVVEDLIAGAPISVEAWSE |
| Ga0208424_100000452 | F002301 | N/A | MVEVPDIQQVLWLWFVTHPLKLTEWSALDIKDREKLIAKSLRNAAIKHCEREKARTVGYELLDLYYYDASVIEAFLPSIISESYEIPSKIKDLNYKFSKSEGSSDGNNWLVLRSDIANAFYKLTEAKQNVLRIRFSTDSAEWSLIAKDLKTTPDGARMKVQRAINSLIRNLGGWRPYTDEDVQQQEQDDESE |
| Ga0208424_100000454 | F088554 | GAGG | MTEKFSPYKAALRRKKIAEAKKLKAIKYIKDMNKKANKDANV |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |