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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |
| Basic Information | |
|---|---|
| Taxon OID | 3300027911 Open in IMG/M |
| Scaffold ID | Ga0209698_10026801 Open in IMG/M |
| Source Dataset Name | Freshwater sediment microbial communities from Pennsylvania, USA - Little Laurel Run_MetaG_LLR_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) | 5347 |
| Total Scaffold Genes | 11 (view) |
| Total Scaffold Genes with Ribosome Binding Sites (RBS) | 9 (81.82%) |
| Novel Protein Genes | 4 (view) |
| Novel Protein Genes with Ribosome Binding Sites (RBS) | 4 (100.00%) |
| Associated Families | 4 |
| Taxonomy | |
|---|---|
| All Organisms → cellular organisms → Bacteria → Acidobacteria | (Source: UniRef50) |
| 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 | USA: Pennsylvania, Clearfield County | |||||||
| Coordinates | Lat. (o) | 41.170727 | Long. (o) | -78.4726 | Alt. (m) | Depth (m) | Location on Map | |
| Zoom: | Powered by OpenStreetMap © | |||||||
| Family | Category | Number of Sequences | 3D Structure? |
|---|---|---|---|
| F001643 | Metagenome / Metatranscriptome | 659 | Y |
| F014420 | Metagenome / Metatranscriptome | 263 | Y |
| F020070 | Metagenome | 226 | Y |
| F061167 | Metagenome / Metatranscriptome | 132 | Y |
| Protein ID | Family | RBS | Sequence |
|---|---|---|---|
| Ga0209698_100268012 | F001643 | GGAG | MNIPTDTLIDMLYIVLAGDFAITANDVTEIEQIQRELQRRGGEQRWSFQAVN |
| Ga0209698_100268013 | F020070 | GGCGG | MLTTTIHVRRARLDRRSGDGGCPASSAVRQGHFLLLAIGALLGFGLRLFAQASDFPATEGPNQSWTVITDSKGANVNPARIIESHSENGNRAIDKKSSEIHRFDGNFEPYQDIERETLELDPATVRTTTRTFGRDGNGTKILVQIIEEEKHILPGGGSNVLCITSSPDVSGTLRVSRREITETKMIGNDVEETQTTVMLPSLNGGLVPVLKARESRKRVTSDSVESQKTTLLLDGAGNWQVSEIRQATTRQEGTNRTTEERVSRLDSEGKLVEVSHVVSKESESTSGKKRSVVETYSIDVPGTTRDGSLHLVERKTSTERSSSTGERATEQRVEQTNPGDPGSGLRVSVLVDGRMVPGPSGFQATRTVRLRDLNGNVGIVEADTTRSDKILTIQVQQTPAEKP |
| Ga0209698_100268016 | F014420 | AGGAGG | MISNSYPEPLRDWRTLYKAALAETDVQKLPLRIEETRTALVLRSRELFSTSPNYDDESEAIDDAVYALKALENSLKLNTRDRRRTPRVA |
| Ga0209698_100268017 | F061167 | AGG | MMRQRGHEVLTTTTVAEALAIMRKLSFDALVMDCAQDTLDIVSFTARAHGLQPSLGVFLTHEWGDELATGLEELTHVLTMLEDDEFVRLKVESLMA |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |