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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_1000806 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) | 47349 |
| Total Scaffold Genes | 48 (view) |
| Total Scaffold Genes with Ribosome Binding Sites (RBS) | 39 (81.25%) |
| Novel Protein Genes | 6 (view) |
| Novel Protein Genes with Ribosome Binding Sites (RBS) | 4 (66.67%) |
| Associated Families | 6 |
| 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? |
|---|---|---|---|
| F000335 | Metagenome / Metatranscriptome | 1276 | Y |
| F000451 | Metagenome / Metatranscriptome | 1124 | Y |
| F002448 | Metagenome / Metatranscriptome | 558 | Y |
| F007212 | Metagenome / Metatranscriptome | 355 | Y |
| F010139 | Metagenome / Metatranscriptome | 308 | Y |
| F050849 | Metagenome | 144 | Y |
| Protein ID | Family | RBS | Sequence |
|---|---|---|---|
| Ga0209581_100080615 | F010139 | AGG | MPQLVYVKSPQGDEIKEVEATAEALSPLLSKGWHQVPVPAELKPAAPAEEKGLAVRWLT |
| Ga0209581_100080616 | F002448 | GAGG | MINPKTLLAEWVAALQALPNLVEALGGNQNHIQFYSENAVVFGKPTQNNIRMAILSMPPGSILVAWQGSGPGRLGNALVFVHDFSLYLRAPEQADVGYEDLFNLIVNDIPAGASLRMLHTPIDPNCEPMDFYLPSARRNTIVISADGATFEYFECPVRLIESFNP |
| Ga0209581_100080617 | F007212 | N/A | MSDWATIAAGVNAAMQDAFGEPVVYQSVQGGFPVGDPLTITAIRHVRERGESGAAASAEEISINPADLPADPQPGDWVTAWGTQFVVGPVRQPDPNGMVQLSLIARQSPDDQP |
| Ga0209581_100080621 | F050849 | N/A | MRVCEFIEREAGHVTVSLVLIALGAVLWLLKVPKGEDLIPFALGVLGRSMIGKPNEPSR |
| Ga0209581_10008066 | F000335 | GGA | MPGNLQPAAPNGVMPASLCTAFTELREYVQLQNQYHDGTVQRSQLAQTSRRTFRLSKRLSASALSALYNFWVSQNGGLTPFAFYNPFDVAAGQHIGSNYDPTGNNTQGRVTVAFRGNWAQATDLARSDVQALELVEVA |
| Ga0209581_10008069 | F000451 | GAG | MPRFQTAIRRARFVYSPYTAVEMQGFAQVLADAIRTRIQSGQNIYDQPAAPLKPGKPGRRGYPDYKSARGLQPIRDWTWSGHTLRCLKVLTANENRAVIGFLDEALPGRRQTASQIALYNNLRERQWGVSPRDRAAVIAAILSGRRIVTVKAA |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |