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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |
| Basic Information | |
|---|---|
| Taxon OID | 3300027956 Open in IMG/M |
| Scaffold ID | Ga0209820_1000030 Open in IMG/M |
| Source Dataset Name | Freshwater sediment microbial communities from Prairie Pothole Lake near Jamestown, North Dakota, USA - PPLs Lake P7 Core (1) Depth 19-21cm 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) | 37201 |
| Total Scaffold Genes | 56 (view) |
| Total Scaffold Genes with Ribosome Binding Sites (RBS) | 32 (57.14%) |
| 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: 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) | 47.0956 | Long. (o) | -99.1001 | Alt. (m) | Depth (m) | 0 | Location on Map |
| Zoom: | Powered by OpenStreetMap © | |||||||
| Family | Category | Number of Sequences | 3D Structure? |
|---|---|---|---|
| F004049 | Metagenome / Metatranscriptome | 455 | Y |
| F005206 | Metagenome / Metatranscriptome | 408 | Y |
| F026249 | Metagenome / Metatranscriptome | 198 | N |
| F033774 | Metagenome | 176 | N |
| Protein ID | Family | RBS | Sequence |
|---|---|---|---|
| Ga0209820_10000303 | F033774 | AGG | VKSAFDLIQRDAFKCAVGRAIFCCHPDCGVILDYRRAVELSACKGPHYVSIKVFCADCADRVRPVIEEKLVPLGLRLEVIDGRKL |
| Ga0209820_100003036 | F005206 | N/A | MKFTVDRSQAEVKPFASPGEYIVTVNSCKDDNLDKNGNPVCILRFKGGNGEVISDRFVLKDTMMWRLQALISATEANISDGDEFDFSIGGAFFRFLQGFVGLQLVVVLEEEKYTDKQGAEQVTLRVKRMKKVPVDVDDI |
| Ga0209820_100003050 | F004049 | GGAGG | MIVPIGPAAFVFRHKRTGQIFVAPSERWHEFYDNKEDWEHTASVNACGALQYIIDAKPAERNRYIKSLTKKP |
| Ga0209820_10000307 | F026249 | AGGA | MERSKGIHGHTLWGKVTGMESDQVKERKAGKSGKGKEPIIRPSGAVKKNGPDPKSVAESDWSRVLDAASLGIPFERLCHLAGMTDKTFTKYLLRYPERKEAIEAARTRGEYDLTSVVRQCGNGWQGSAWLLERTRGYVARAQLDHTTKGKELSVSGNLLGAFGGGNK |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |