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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |
| Basic Information | |
|---|---|
| Taxon OID | 3300027898 Open in IMG/M |
| Scaffold ID | Ga0209067_10000378 Open in IMG/M |
| Source Dataset Name | Freshwater sediment microbial communities in response to fracking from Pennsylvania, USA - Cold Stream Run_MetaG_CSR_2013 (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) | 29070 |
| Total Scaffold Genes | 33 (view) |
| Total Scaffold Genes with Ribosome Binding Sites (RBS) | 26 (78.79%) |
| Novel Protein Genes | 4 (view) |
| Novel Protein Genes with Ribosome Binding Sites (RBS) | 2 (50.00%) |
| 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? |
|---|---|---|---|
| F000586 | Metagenome / Metatranscriptome | 1007 | Y |
| F005822 | Metagenome / Metatranscriptome | 389 | Y |
| F011771 | Metagenome / Metatranscriptome | 287 | Y |
| F014867 | Metagenome | 259 | Y |
| Protein ID | Family | RBS | Sequence |
|---|---|---|---|
| Ga0209067_100003782 | F011771 | N/A | MIDSKPDPKGEHATASGPTRFGGLDQVDWLMIAISVLLGTVAKQHHFLDLSDQFLEWVLPFLLMVAGYWTRRKVTELIESWRAKAKSPSSE |
| Ga0209067_1000037827 | F000586 | N/A | MRARARQAIALLKTQLVDTGTVQPLVALYFEDHIEQVHFEDPSVLDHFDIRTARSFDRLRTLMGIKAPQAAMMTLDVRMGPFESDEREVVPEKTAIFLMLDSPLLTIQVILPYKRSGGRIAVSRVQYTEMPGAEEITPCEIFKLFSDAPVRVC |
| Ga0209067_100003783 | F014867 | GAGG | MRTFFPSTYDRADVLMSAGCSTFVSAALILVIPRFGILLLEILLGLFFIGCALMARKRLRRQALGQDSSDKSKDARTRRFDRYDVLMILAVVIVQTSTAGLLRKAGLAEGTVGILPLFLFAAGILLKPRAVEFIEGRRKTKQAGRNSNNLPTVAAQASASEAGTKTVVRAATKNGDLE |
| Ga0209067_100003784 | F005822 | GGAG | MKVSEQPTALNGAESTADSKITHPPAGEGRRSRAVTDSRPTLPRNAATRRRRNRQDNSETSGEERFFLASGSSDGAVPALGRECGSEAEAIIDAFRERVNFYRLSEFQTRADVGPSGEPVLRKDGLKKNNPAS |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |