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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |
| Basic Information | |
|---|---|
| Taxon OID | 3300027706 Open in IMG/M |
| Scaffold ID | Ga0209581_1000088 Open in IMG/M |
| Source Dataset Name | Surface soil microbial communities from Centralia Pennsylvania, which are recovering from an underground coalmine fire - Coalmine Soil_Cen15_06102014_R2 (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) | 303203 |
| Total Scaffold Genes | 298 (view) |
| Total Scaffold Genes with Ribosome Binding Sites (RBS) | 223 (74.83%) |
| Novel Protein Genes | 7 (view) |
| Novel Protein Genes with Ribosome Binding Sites (RBS) | 5 (71.43%) |
| Associated Families | 7 |
| Taxonomy | |
|---|---|
| All Organisms → cellular organisms → Bacteria → Acidobacteria → Acidobacteriia → Acidobacteriales → Acidobacteriaceae | (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? |
|---|---|---|---|
| F000092 | Metagenome / Metatranscriptome | 2385 | Y |
| F000793 | Metagenome / Metatranscriptome | 889 | Y |
| F010351 | Metagenome / Metatranscriptome | 305 | Y |
| F016587 | Metagenome / Metatranscriptome | 246 | Y |
| F035719 | Metagenome / Metatranscriptome | 171 | Y |
| F039368 | Metagenome / Metatranscriptome | 164 | Y |
| F048484 | Metagenome / Metatranscriptome | 148 | Y |
| Protein ID | Family | RBS | Sequence |
|---|---|---|---|
| Ga0209581_1000088123 | F016587 | N/A | MGIMKRLMILGLAAAVVCLGGCNKPGTSGGASARPDDAVSLKLKELAGAGATDCGRLDVKATEQQSKAASGCATQAAQSKHPFYVAYDMPGMSTGVAGNSEGKLFALQLQGSGTGAQLQSGPCPAELRVAHSGRLTCFIPGTMGLSPSAADPHSGINVNPAMKPGGGAMIPQPFAPPATSKAQTTPKKP |
| Ga0209581_1000088184 | F039368 | GAG | VEAAIKVIRAVQIAMLVSVALFVGIGEAVGSIPKLNNPALLYALSTATITIVGVILVVRRTLVLQSATALAARPNDAAALNRWRAGYVMTYALSESITLFGLALRLIGFTFAQVWFFYIAGFILLLFFRPRRPLSEAV |
| Ga0209581_1000088190 | F048484 | GAGG | MAVSLVLALGTLAVAQDWDDYNRGGGFALARQYGYDNGFRDGEKRGRHEGRENDPYDYHTPDWRQATHGYKGWMGPVNAFQNGYQQGYADGFRSGFIAERPGWRDREAGRDDDRGGAYYGNGYYGGNYVDSSRIAYDTGYQDGATMAREDLYKNKRFNPNPRARFDDRDHGYHREYGDKNLYKDHYTDGYRAGYEATFNGRY |
| Ga0209581_1000088212 | F000793 | AGGAGG | MGLLQWFSQHGILTLLIAYIPLIATVVTTILSLVLARATLRYAEASDKSLALAREEFEREWSPELHIKLERESPHDAKLVVTNLAKISVLLQMVQIRKITLGVPSSRYFLNEPLVGGTTWIDELGKRFFDCTGEDYKGVVGVSVTFYVSGRLFRTDWFRFHTEVEAGRILKIHPVSIAARRVRVLETRNRNGKRRRELVMDVVAGTSGAHPNL |
| Ga0209581_1000088267 | F010351 | N/A | MAFTRIQLYIAVAAAVLLLLIFFGYLSWLNNQGPVLAKSEDHDPLSGTPNSIKLNPLRDRTSEKIAAAFMRAMKDGNCRQELSEWEHDYRRKYAAFICDSEAKHPLIGWQLVDWDDRPPLRILQYRGKRLNSPGDATTYTGLLSVTLEKRAGRWNVTKYDALY |
| Ga0209581_100008877 | F000092 | GAG | VQQHLQRQSGVAKVDVSLIDGKVDLTPKEDGRIDPAQLLKATYDSGVSVAELDMTASGTIVQDSAGNLSLQVSPNQSFVISPNELSRGIGPLAGSSKGITIRGQLYKKPVGKQKKAEAGAPLRLRILEVLRKQ |
| Ga0209581_100008882 | F035719 | GAG | MEVTIKVPDKLAAEARAHGVSVEVYVREILARQALETTGEQRLQSVRAAIDRILDLRKGNKLAGLRTKDLIHEGHKY |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |