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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |
| Basic Information | |
|---|---|
| Taxon OID | 3300027792 Open in IMG/M |
| Scaffold ID | Ga0209287_10000180 Open in IMG/M |
| Source Dataset Name | Freshwater sediment microbial communities from Prairie Pothole Lake near Jamestown, North Dakota, USA - PPLs Lake P8 Core (1) Depth 1-3cm May2015 (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) | 42124 |
| Total Scaffold Genes | 65 (view) |
| Total Scaffold Genes with Ribosome Binding Sites (RBS) | 14 (21.54%) |
| Novel Protein Genes | 4 (view) |
| Novel Protein Genes with Ribosome Binding Sites (RBS) | 1 (25.00%) |
| Associated Families | 4 |
| Taxonomy | |
|---|---|
| All Organisms → cellular organisms → Bacteria | (Source: UniRef50) |
| Source Dataset Ecosystem |
|---|
| Environmental → Aquatic → Freshwater → Sediment → Unclassified → Freshwater Sediment → Freshwater Sediment Microbial Communities From Cottonwood Lakes Research Site Near Jamestown, North Dakota, Usa |
| Source Dataset Sampling Location | ||||||||
|---|---|---|---|---|---|---|---|---|
| Location Name | near Jamestown, North Dakota | |||||||
| Coordinates | Lat. (o) | 47.0991 | Long. (o) | -99.1044 | Alt. (m) | Depth (m) | 0 | Location on Map |
| Zoom: | Powered by OpenStreetMap © | |||||||
| Family | Category | Number of Sequences | 3D Structure? |
|---|---|---|---|
| F034486 | Metagenome / Metatranscriptome | 174 | Y |
| F044910 | Metagenome | 153 | Y |
| F060838 | Metagenome / Metatranscriptome | 132 | Y |
| F085177 | Metagenome / Metatranscriptome | 111 | Y |
| Protein ID | Family | RBS | Sequence |
|---|---|---|---|
| Ga0209287_1000018025 | F060838 | N/A | MSTLQYVQPTEEQKAEMQSFRDKFEALFVELKARPASRGMSLCLTKFEESAMWLNKAITGND |
| Ga0209287_1000018048 | F034486 | GGAG | MENEQTQNQKKISLATSEHAPAIILLMKDCMEQTPIIADTEWKTIVNAITLEVQSTMLRKMVDYLEEIRKGSLHEPK |
| Ga0209287_1000018053 | F085177 | N/A | MTGTINDYAVIVNNVLKHVSPKVSPTVKPEYLDFMFKITDNQRIYSDVGVTGLGMGEIIPDGGVGASDAPIQGYSKNYTQMHFTKKVRLTFQTNFFLFESAAAKIKGSVKAKVLDGKNAIEHAKNYLGQCLLSQGFGTSFTWVPINNVGTPTPISTLGADAAAYWDATHPREDGGAAWSNVIVDVVPSPQFTYSSLLAARRQQSLKKDGRGNPLISQLDTLICRAGSTTAQYAKTIKATIDKGLAPQQTNLFNNAPATDTFKIVELSAYENLGLDGLMWGMFDSKMMNADYGFLYIESLPTRAEPAVVDALGNQDLVMNFNCLATVGASDLRGWMWSDGDGATAG |
| Ga0209287_1000018054 | F044910 | N/A | MLQDAHSRKVSIEVEAPVGANNVIVASVPGTWLYIHELIGDLAAAGEITIKAGSRVLGEFALADGQGITLQDEPGEDNRPRFECLPGESFLMTVTGGTFKGSCHYSLRY |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |