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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |
| Basic Information | |
|---|---|
| Taxon OID | 3300027894 Open in IMG/M |
| Scaffold ID | Ga0209068_10000045 Open in IMG/M |
| Source Dataset Name | Freshwater sediment microbial communities in response to fracking from Pennsylvania, USA - Cold Stream Run_MetaG_CSR_2012 (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) | 77740 |
| Total Scaffold Genes | 60 (view) |
| Total Scaffold Genes with Ribosome Binding Sites (RBS) | 53 (88.33%) |
| Novel Protein Genes | 4 (view) |
| Novel Protein Genes with Ribosome Binding Sites (RBS) | 3 (75.00%) |
| Associated Families | 4 |
| Taxonomy | |
|---|---|
| All Organisms → cellular organisms → Bacteria | (Source: IMG/M) |
| Source Dataset Ecosystem |
|---|
| Environmental → Aquatic → Sediment → Unclassified → Unclassified → Watersheds → Freshwater And Sediment Microbial Communities From Various Areas In North America, Analyzing Microbe Dynamics In Response To Fracking |
| Source Dataset Sampling Location | ||||||||
|---|---|---|---|---|---|---|---|---|
| Location Name | Pennsylvania, USA | |||||||
| Coordinates | Lat. (o) | 41.1289 | Long. (o) | -78.4195 | Alt. (m) | Depth (m) | Location on Map | |
| Zoom: | Powered by OpenStreetMap © | |||||||
| Family | Category | Number of Sequences | 3D Structure? |
|---|---|---|---|
| F001352 | Metagenome / Metatranscriptome | 717 | Y |
| F016200 | Metagenome / Metatranscriptome | 249 | Y |
| F037347 | Metagenome / Metatranscriptome | 168 | Y |
| F052051 | Metagenome / Metatranscriptome | 143 | Y |
| Protein ID | Family | RBS | Sequence |
|---|---|---|---|
| Ga0209068_1000004510 | F001352 | GAGG | MSSRELSPEWVLSSFIPPIAAPQHEISELIAVARRLWPSVQAHAYREQPGKSSDEALDFASEVWEGVLRSVAKTIQRSKGRNWRIRDMEAYLFGVFHHRFNRALKKERRRLQTIQHLPTSPDLERLGQAHDSKAVRDLEQSIQLREAVRNMDEWTRKVWAARQYGYSWKEIATQLGLAEHQVKLRFRYAIGKLRARLCGPT |
| Ga0209068_1000004511 | F016200 | N/A | MALRKVPLSEADGWLTHFSSCSPCFQEFTQFRKQVSDRRRTQIWLAVAAVFVFAVVGWILVRPRPQLHAVVVVVLDLRDRATVRGENPPETMPLLVVPRNAKTLHLELPIGSNEGAYDLALLDQSGAEVFRTSATAKLEDHIVVLTSDVDLAGVSPGSYFLGLRQRDLEWTRFRIRVL |
| Ga0209068_1000004513 | F037347 | GAG | MEVTAETLYEAIAAAMAALQQDNWVGEIGQGFTTVTVVVQQPPVKHEVKMKDFVSWLGRQGRSPAEVILKQKLEKILGKVNHTGRDRKG |
| Ga0209068_1000004555 | F052051 | GAG | MPISAANPAGLPYVSLCVVCLPNESAPRCNGGGELHLSCTGHANSERALTVVAFRSQSANKNVALKSVCRYVSRLCSGTASGLFMRPTAARSSASAAPPCGLRFPSKSCSQRAPKRFLRSLRKCRASALGSTAHSLNSAPIKIGKFNKRRQSCIRTK |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |