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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |
| Basic Information | |
|---|---|
| Taxon OID | 3300024549 Open in IMG/M |
| Scaffold ID | Ga0256308_1015788 Open in IMG/M |
| Source Dataset Name | Metatranscriptome of freshwater microbial communities from Columbia River, Oregon, United States - Colum_Atlam_RepC_8d (Metagenome Metatranscriptome) |
| Source Dataset Category | Metatranscriptome |
| Source Dataset Use Policy | Open |
| Sequencing Center | DOE Joint Genome Institute (JGI) |
| Sequencing Status | Permanent Draft |
| Scaffold Components | |
|---|---|
| Scaffold Length (bps) | 1645 |
| Total Scaffold Genes | 3 (view) |
| Total Scaffold Genes with Ribosome Binding Sites (RBS) | 0 (0.00%) |
| Novel Protein Genes | 2 (view) |
| Novel Protein Genes with Ribosome Binding Sites (RBS) | 0 (0.00%) |
| Associated Families | 2 |
| Taxonomy | |
|---|---|
| All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → environmental samples → uncultured Caudovirales phage | (Source: UniRef50) |
| Source Dataset Ecosystem |
|---|
| Environmental → Aquatic → Freshwater → River → Unclassified → Freshwater → Freshwater Microbial Communities Amended With Dissolved Organic Matter (Dom) From Various Rivers In The United States |
| Source Dataset Sampling Location | ||||||||
|---|---|---|---|---|---|---|---|---|
| Location Name | USA: Oregon | |||||||
| Coordinates | Lat. (o) | 46.1812 | Long. (o) | -123.1834 | Alt. (m) | Depth (m) | 5 | Location on Map |
| Zoom: | Powered by OpenStreetMap © | |||||||
| Family | Category | Number of Sequences | 3D Structure? |
|---|---|---|---|
| F078423 | Metagenome / Metatranscriptome | 116 | N |
| F104768 | Metagenome / Metatranscriptome | 100 | N |
| Protein ID | Family | RBS | Sequence |
|---|---|---|---|
| Ga0256308_10157882 | F104768 | N/A | VLVGNDLPYVWLEFRKTPPLLSSAAEATAYAFPYRFCEICALKAAGQMLRVDGKIDLGNQFLELGEVELTKEIDKVALQEKYVRQIIVPSR |
| Ga0256308_10157883 | F078423 | N/A | MPDLPQIGAIDDGFVGVVSRIDPALIPASYVSNAVNRRFEDQVIKNRWGIVQPKWGGRWSSGSRIVTLTSGSSVGVPVSGTQIPANSQVVCDVDANTQIFSNGTLCTLDDNTNAIFSTAAFSFAPSPANKTVQFYNSTAPFEDILGVLQYRDPDTGANALLVAVNEERSSDGGQGKVWCIRPNQSPVEVPMNGHDIYSPVRLIQATNGVVMLRPGNARYYFTEADVNTGNNTVTLNVVPDLATGDIVNVGQIGNAAPLWNASPGSGQGFQLYVNVVNQVVSLHLTLADARAKTNSLPLNPDNNARYYIELASNTTGYDLAQDIVNNLNDGMPILMQSTATNPSALDAGFNRIPSTLSINSSDATADTIAVFNHNFIPGDQVTLTNIENGGANVTNKIYYVY |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |