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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |
| Basic Information | |
|---|---|
| Taxon OID | 3300027857 Open in IMG/M |
| Scaffold ID | Ga0209166_10000052 Open in IMG/M |
| Source Dataset Name | Surface soil microbial communities from Centralia Pennsylvania, which are recovering from an underground coalmine fire - Coalmine Soil_Cen01_05102014_R1 (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) | 156859 |
| Total Scaffold Genes | 147 (view) |
| Total Scaffold Genes with Ribosome Binding Sites (RBS) | 126 (85.71%) |
| Novel Protein Genes | 7 (view) |
| Novel Protein Genes with Ribosome Binding Sites (RBS) | 6 (85.71%) |
| Associated Families | 7 |
| Taxonomy | |
|---|---|
| All Organisms → cellular organisms → Bacteria | (Source: IMG/M) |
| Source Dataset Ecosystem |
|---|
| Environmental → Terrestrial → Soil → Unclassified → Unclassified → Surface Soil → Surface Soil Microbial Communities From Centralia Pennsylvania, Which Are Recovering From An Underground Coalmine Fire. |
| Source Dataset Sampling Location | ||||||||
|---|---|---|---|---|---|---|---|---|
| Location Name | USA: Pennsylvania, Centralia | |||||||
| Coordinates | Lat. (o) | 40.7999 | Long. (o) | -76.3402 | Alt. (m) | Depth (m) | Location on Map | |
| Zoom: | Powered by OpenStreetMap © | |||||||
| Family | Category | Number of Sequences | 3D Structure? |
|---|---|---|---|
| F000042 | Metagenome / Metatranscriptome | 3762 | Y |
| F000065 | Metagenome / Metatranscriptome | 2788 | Y |
| F000274 | Metagenome / Metatranscriptome | 1399 | Y |
| F000309 | Metagenome / Metatranscriptome | 1327 | Y |
| F000850 | Metagenome / Metatranscriptome | 861 | Y |
| F001829 | Metagenome / Metatranscriptome | 629 | Y |
| F001932 | Metagenome / Metatranscriptome | 615 | Y |
| Protein ID | Family | RBS | Sequence |
|---|---|---|---|
| Ga0209166_1000005237 | F000850 | GAG | MKKPELTDMGWLGPKDEMDRASHLIGKCSECHETLCVEKAKADRQQTQLETREVLDQVFRAHIKLKHSEDFSHSG |
| Ga0209166_1000005242 | F001932 | AGGAGG | MRQKLVLWFLLVLTGFLIGFILQYSRLQRVQQDLLASTKQLGSCRSSQQLAQLRDTTTMMYLEVVQKNYGKAGEYSGAVFDQAQQIASSTEDPALRNFLREVLVTRDQITADLAKGDPAALSEIQRLLSNLEHTAKH |
| Ga0209166_1000005243 | F000065 | N/A | MTHRTKEPIPKLRKAPQPPLSHAGAIPDSDRAKRPPLSEPAATSQELTPGDRVEGLGDFGKPTGEFGTVKQANEDDAVVKWDDDGRVRVHQPSLKKV |
| Ga0209166_1000005257 | F000274 | GGAGG | MNLKIVTGLIALFMFASAAGLATAQDTTKTTHKKTRTLTGCLQKGEDANEYNFTAKDGGTWEIKSDSVKLDEHVGHTVKIVGVVSNAMAHGMKEDTKEEMKEHGMDKHAKESGHMTVTSLTMVSDTCQK |
| Ga0209166_1000005272 | F001829 | GAGG | MRRQYLHLSAYHCDSCAGPVIAGWLGVRENEISKETDVRHVGAICLSCGHRQRAATEPARARHLMPMEWAQADAVLASRLKSAFVEALNLAELQ |
| Ga0209166_1000005278 | F000309 | GGA | MSADCVTENPRMEADAKPSLDRTLECAIVVSWSDLTHGTRTDLIHVEYGFAPTGMLEYLKVWSSIARGHWLLACVCWTSENTFHSTGVRFDNGYESEGLAHILEFVMQHQNSFALPPNLGRQGLLQISTPTAEESTAAAALIKEVFDHLPSTVAEPAVA |
| Ga0209166_1000005280 | F000042 | AGGAG | MTNIKFVVRVNHSGTRAPAYVQRIGKTPFQMTNNRKLALIMGKFTAEDAARSMQNSRCTPEIVPVQVSA |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |