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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |
| Basic Information | |
|---|---|
| Taxon OID | 3300011268 Open in IMG/M |
| Scaffold ID | Ga0151620_1024634 Open in IMG/M |
| Source Dataset Name | Sub-surface freshwater microbial communities from San Francisco Estuary Delta, California, USA . Combined Assembly of Gp0173482, Gp0175554, Gp0175555 |
| Source Dataset Category | Metagenome |
| Source Dataset Use Policy | Open |
| Sequencing Center | Oregon State University |
| Sequencing Status | Permanent Draft |
| Scaffold Components | |
|---|---|
| Scaffold Length (bps) | 2076 |
| Total Scaffold Genes | 6 (view) |
| Total Scaffold Genes with Ribosome Binding Sites (RBS) | 5 (83.33%) |
| Novel Protein Genes | 4 (view) |
| Novel Protein Genes with Ribosome Binding Sites (RBS) | 3 (75.00%) |
| Associated Families | 4 |
| Taxonomy | |
|---|---|
| All Organisms → cellular organisms → Archaea → Euryarchaeota → unclassified Euryarchaeota → Euryarchaeota archaeon | (Source: UniRef50) |
| Source Dataset Ecosystem |
|---|
| Environmental → Aquatic → Freshwater → Lotic → Unclassified → Freshwater → The Molecular Ecology Of Microcystis Sp. Blooms In The San Francisco Estuary Delta |
| Source Dataset Sampling Location | ||||||||
|---|---|---|---|---|---|---|---|---|
| Location Name | San Francisco Estuary Delta, California, USA | |||||||
| Coordinates | Lat. (o) | 37.986944 | Long. (o) | -121.523611 | Alt. (m) | Depth (m) | .2 | Location on Map |
| Zoom: | Powered by OpenStreetMap © | |||||||
| Family | Category | Number of Sequences | 3D Structure? |
|---|---|---|---|
| F000311 | Metagenome / Metatranscriptome | 1326 | Y |
| F000980 | Metagenome / Metatranscriptome | 814 | Y |
| F001125 | Metagenome / Metatranscriptome | 769 | Y |
| F034472 | Metagenome / Metatranscriptome | 174 | N |
| Protein ID | Family | RBS | Sequence |
|---|---|---|---|
| Ga0151620_10246341 | F000980 | N/A | NSAMTKYQKYTWVCTSECDALIEYTFKDGYGWPNGVTDLTCRCGTSCTLLSVEDATIPYTDSPLPTEEEKMETTEKPAVTVPDTYNANLLVTYKVIHGYSDATYETDKVASIEWSLHNGRESQKRVSLYLSKIDAVKEIICEAYADSGDQDTLREIAEALDIELIKEVLFTASVEVSGTYSYNVLENDYDLDLESEVTDALYADSNNGNITIDDTEVCNVREA* |
| Ga0151620_10246342 | F000311 | GAG | MYFELTAPDRLSLEMAYWDAQITGLDPEFMPPLTFNIGTGSIEKVSRIRDKYNLSESYWSDREATGYKGK* |
| Ga0151620_10246345 | F001125 | AGGCGG | MGDRANFGFRDSKENIIFLYGHWAGHRMLENLANAVEQARPRWGDESYATRICVSQLINEEWASETGWGLNVNEIGDNEHKVPVIDWKNRTFTLYEHDLHSPVFSLALDAFVTKYSSQPSMV* |
| Ga0151620_10246346 | F034472 | AGGA | MPNWCYNTLTIQGPKVEVDMIKDRLNAPFTLAQET |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |