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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |
| Basic Information | |
|---|---|
| Taxon OID | 3300009124 Open in IMG/M |
| Scaffold ID | Ga0118687_10002328 Open in IMG/M |
| Source Dataset Name | Marine sediment microbial communities from methane seeps within Hudson Canyon, US Atlantic Margin - Hudson Canyon PC-16 72 cmbsf |
| Source Dataset Category | Metagenome |
| Source Dataset Use Policy | Open |
| Sequencing Center | Oregon State University |
| Sequencing Status | Permanent Draft |
| Scaffold Components | |
|---|---|
| Scaffold Length (bps) | 6806 |
| Total Scaffold Genes | 17 (view) |
| Total Scaffold Genes with Ribosome Binding Sites (RBS) | 11 (64.71%) |
| Novel Protein Genes | 6 (view) |
| Novel Protein Genes with Ribosome Binding Sites (RBS) | 4 (66.67%) |
| Associated Families | 6 |
| Taxonomy | |
|---|---|
| All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales → Burkholderiaceae → Cupriavidus → unclassified Cupriavidus → Cupriavidus sp. | (Source: UniRef50) |
| Source Dataset Ecosystem |
|---|
| Environmental → Aquatic → Sediment → Unclassified → Unclassified → Sediment → Marine Sediment Microbial Communities From Methane Seeps Within Hudson Canyon, Us Atlantic Margin |
| Source Dataset Sampling Location | ||||||||
|---|---|---|---|---|---|---|---|---|
| Location Name | Hudson Canyon, US Atlantic Margin | |||||||
| Coordinates | Lat. (o) | 39.54345 | Long. (o) | -72.3998 | Alt. (m) | Depth (m) | 541.1 | Location on Map |
| Zoom: | Powered by OpenStreetMap © | |||||||
| Family | Category | Number of Sequences | 3D Structure? |
|---|---|---|---|
| F009955 | Metagenome | 310 | Y |
| F010614 | Metagenome | 301 | Y |
| F013407 | Metagenome | 271 | N |
| F034560 | Metagenome | 174 | N |
| F055697 | Metagenome | 138 | N |
| F058112 | Metagenome | 135 | N |
| Protein ID | Family | RBS | Sequence |
|---|---|---|---|
| Ga0118687_1000232815 | F010614 | AGGTGG | MNDDETYKQWAKLCRMYITRTNAEIDQMVSEMHTMAGIHEGFENADAWEAMHDRAVDDMQAQAANSPEYAWALLRVLGAKLWMVRALEAMEEGADE* |
| Ga0118687_1000232816 | F058112 | GGAG | MTPEQRQQLTSTQAAAQARNSEAFRMNPNLQIWLRQVRTAAVIRRTARNFVRWKNE* |
| Ga0118687_100023282 | F009955 | N/A | MNTLDDAARAVDEALQALGQASQDLYRCRYGDREVNAAVEWNSESEIEGGPLSRELRADAIVIERWRAAVLEFAQDKKS* |
| Ga0118687_100023283 | F034560 | N/A | MAEQNETPQDDDDGGIEWRTLNRTVRVDAATSQKLIDWIGPHLRLIVAAVAWGLFIIATCYAASLVL* |
| Ga0118687_100023284 | F055697 | AGGCGG | MRTAAAVFCLCTVLHFPLPDGWKFTIADPPAAAQPDWYLVSFGAEWCGPCRQWKRDHLAATRKVLPVVVVDIAKDPEWKRSRQLAAPPGGRATIPGITRVPTFWLVHRASRWPVKTWVGGKTADQVRQLIPDTVPDWTRETEAAPPLPE* |
| Ga0118687_100023287 | F013407 | AGG | MSGPITRHHWDALAADIYARGGYRNYGIDPMSILAMLNTIVPQVLQWVADCKRLRDDEVQPAVAAMHARNPAMAKRRTAAQCLKLRRKQGEQFCKDFNVPRTKRRAILQADFTLSDEQATAMAEDMIDECCNRSAEDVARFAAAARGA* |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |