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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |
| Basic Information | |
|---|---|
| Taxon OID | 3300027826 Open in IMG/M |
| Scaffold ID | Ga0209060_10001132 Open in IMG/M |
| Source Dataset Name | Surface soil microbial communities from Centralia Pennsylvania, which are recovering from an underground coalmine fire - Coalmine Soil_Cen06_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) | 32019 |
| Total Scaffold Genes | 43 (view) |
| Total Scaffold Genes with Ribosome Binding Sites (RBS) | 39 (90.70%) |
| Novel Protein Genes | 10 (view) |
| Novel Protein Genes with Ribosome Binding Sites (RBS) | 8 (80.00%) |
| Associated Families | 10 |
| Taxonomy | |
|---|---|
| All Organisms → cellular organisms → Bacteria | (Source: UniRef50) |
| 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? |
|---|---|---|---|
| F000586 | Metagenome / Metatranscriptome | 1007 | Y |
| F001528 | Metagenome / Metatranscriptome | 677 | Y |
| F001559 | Metagenome / Metatranscriptome | 671 | Y |
| F003175 | Metagenome / Metatranscriptome | 503 | N |
| F004122 | Metagenome / Metatranscriptome | 452 | Y |
| F004392 | Metagenome / Metatranscriptome | 440 | N |
| F005213 | Metagenome / Metatranscriptome | 408 | N |
| F008922 | Metagenome / Metatranscriptome | 326 | Y |
| F014565 | Metagenome / Metatranscriptome | 262 | Y |
| F068625 | Metagenome / Metatranscriptome | 124 | Y |
| Protein ID | Family | RBS | Sequence |
|---|---|---|---|
| Ga0209060_1000113212 | F004122 | GAG | MTEKGLSDTGQRSDELRYEWHSFLGLLPVLDFQPTDPVLYQRCLTAVWLSRKSAISRTDLHQAAGLGFQAEAVDFDLLLAQLVREEILEPIISSPFHFQIRRRNWTHPESAYAADDRRSLSAIAREEQAGRFRMLGVLGARIDNLRSPERRVQQIRKERDDLEQIYEATWLELENAIGSQAARTIRKSVEEAREAGVVQLELPLEKKRTLSTSKEKQDATSKRG |
| Ga0209060_1000113215 | F003175 | GGAGG | MNRIELSGKSQGKGRNGYFQLHSVELMNIPTDPDGQVLNIDFYPKRRVNCVGPARLLLNLDDATKLALFLGEAVEIRPPVANIEHGELVCVCGHRGTPRLEESGYQVSHALVEIVGDTIIASGWDGSSRAVSEEGDAYWLMCDRCGKLHPLPPDLHIDWR |
| Ga0209060_1000113216 | F008922 | AGGTGG | MTTKQRLACGAAILQSIDARRQRTGNRNELLALEQAIVDRELIELVTGGLCDEERELAGDRVRKRHVPAATRDTGALYEKDLRRANR |
| Ga0209060_1000113219 | F014565 | AGGAG | MKKAVNSGLILLGIGALLLSGCGLRRCLHTTMGCDSDRTEREKPCREFGGPTTGCHSTTPGAYLVN |
| Ga0209060_1000113221 | F001559 | GAGG | MSEVTQGDLNGPIAVRKWIGDVSADRVGQVWRAEDHEVLLRTMRAADELTLALVALARREALEAGLGTNERIDLDGIRSTTEPVGVNLHAHGH |
| Ga0209060_1000113225 | F068625 | N/A | MRAHCAGNIEGDLQLCQRLPNIRRRNGAEYGTAFIADNISLIPANDAAQAAAALRIAKF |
| Ga0209060_1000113238 | F005213 | AGGAG | MASSATKMANEPEGTGEERQPDVQLQDVLFSALVTSVCYWTTIFLLAIVGAYLIDWWLTHPGPYAAPANDPWGITTPPWLILPLAPIGVIGSLGHVVWCALRGQRTWKTLIAAASLVTVMGCSKLLEVYLAPM |
| Ga0209060_1000113242 | F001528 | AGGAG | MSEKNQIVVVLIVALFLGAFVDRITALKIVAGVVLLWTLQNQPVVFECIRTLFSFVQRRPSVREYRGGVTTFRAS |
| Ga0209060_1000113243 | F004392 | N/A | ASEGRSVRAARDAKPGVGRGGATRRRRDRQESSQTNGEERFFLAGANRNGDVPTLGRECATEAEAIIEAFREKVNLYKVTEFQTRADIGRSGEPILRKEMLKKNNPAS |
| Ga0209060_100011327 | F000586 | AGG | MNHADPNTMRARARQAIEILKTQLIETGTIEALVALYFHDYIEQAEFEDPSVLEHFDVRTARSFDYLRTLVRIKKPQAAMITLDVRMGPFESGERDVLADTTAIFLMLDSPLLTIQALLPYTRSGGRIAVSNVHYTEMPGDEGAAPCQLFKVFSDVAAAAC |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |