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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |
| Basic Information | |
|---|---|
| Taxon OID | 3300027842 Open in IMG/M |
| Scaffold ID | Ga0209580_10000009 Open in IMG/M |
| Source Dataset Name | Surface soil microbial communities from Centralia Pennsylvania, which are recovering from an underground coalmine fire - Coalmine Soil_Cen04_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) | 526598 |
| Total Scaffold Genes | 490 (view) |
| Total Scaffold Genes with Ribosome Binding Sites (RBS) | 376 (76.73%) |
| Novel Protein Genes | 9 (view) |
| Novel Protein Genes with Ribosome Binding Sites (RBS) | 8 (88.89%) |
| Associated Families | 9 |
| Taxonomy | |
|---|---|
| All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales | (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? |
|---|---|---|---|
| F005643 | Metagenome / Metatranscriptome | 394 | Y |
| F015364 | Metagenome / Metatranscriptome | 255 | Y |
| F018971 | Metagenome / Metatranscriptome | 232 | Y |
| F022039 | Metagenome / Metatranscriptome | 216 | Y |
| F027959 | Metagenome / Metatranscriptome | 193 | N |
| F029492 | Metagenome / Metatranscriptome | 188 | Y |
| F040808 | Metagenome / Metatranscriptome | 161 | Y |
| F057632 | Metagenome / Metatranscriptome | 136 | N |
| F077545 | Metagenome / Metatranscriptome | 117 | Y |
| Protein ID | Family | RBS | Sequence |
|---|---|---|---|
| Ga0209580_10000009180 | F018971 | GGCGG | VTDEMSEPVSKLSSAAPPLAPVGIDDILRDAEALLGLMAKESLDAVAELANTLTVSARDVGAREIEEAARNVQRLASSHGPVVLAGAMRALTDAIVRAERAPAA |
| Ga0209580_1000000919 | F005643 | AGGAGG | MRKITLMATAATALTAVMAFAAPANADRICRQVCDEGFCRTRCFDNGDRIYRYDRDRRPGVEFRGPGFGVEIGR |
| Ga0209580_10000009248 | F057632 | GGA | MSDHDRLDRMERKLNRIGKYVLFGIALFTVLLAVEMQRMSGDLFFGYGRFALWSFIGVMTVMLLVARAPFRD |
| Ga0209580_1000000927 | F022039 | GGAGG | MKNDPADFDQIDEALMTYDLSDEALEAAARVDGGRAMTVGYCATASHAWYCMPL |
| Ga0209580_10000009280 | F029492 | AGGAG | MNDKIESTEPRDQDVLACDIADEALEAAAAATKPAFSLVGAPTVSILVACCSG |
| Ga0209580_10000009361 | F040808 | N/A | MPGPDLIGPRENAVVGILGLLSVMTGAAVAYFAERFPAHLEALETGAGALLIGGLALASSGLPII |
| Ga0209580_10000009390 | F027959 | GGA | MPLALAEYLRHLATRCSRMSRDCNDPVISKELVIISVELVEKAQALEADYAIPRSDDPRAAEIITRDDDDNDK |
| Ga0209580_1000000987 | F077545 | GAGG | MKSLHTKLVLSALGVALLSGPAVARQLPDQSKVIVNGQTVGADPDPQIRTQLLREWDSRYGE |
| Ga0209580_1000000995 | F015364 | AGGAG | MDHRVKPGGDDVRERRSIANNEASIMPSSRKKRPEQPPYLKRRTFEQGRAEVDAAHVATCRLYCDALDLWRGCAKPLCRRHRHCLGEPTGCFVRGLPRVSARRRLEAQKVVIAGGPRRIAPATHIEWTVRRSALKQIVSWGLG |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |