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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_1000114 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) | 259866 |
| Total Scaffold Genes | 286 (view) |
| Total Scaffold Genes with Ribosome Binding Sites (RBS) | 234 (81.82%) |
| Novel Protein Genes | 8 (view) |
| Novel Protein Genes with Ribosome Binding Sites (RBS) | 6 (75.00%) |
| Associated Families | 7 |
| 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? |
|---|---|---|---|
| F001564 | Metagenome / Metatranscriptome | 670 | Y |
| F011110 | Metagenome / Metatranscriptome | 295 | Y |
| F025048 | Metagenome | 203 | Y |
| F030458 | Metagenome | 185 | Y |
| F031889 | Metagenome / Metatranscriptome | 181 | Y |
| F046796 | Metagenome / Metatranscriptome | 150 | Y |
| F050849 | Metagenome | 144 | Y |
| Protein ID | Family | RBS | Sequence |
|---|---|---|---|
| Ga0209581_1000114110 | F025048 | GGA | MLNPAAMVDSIVTTLQAIPDLAAAMTVLDENGTPTCRISAFHYRLGVEHRLAEAIFKMPAPSLMLVWEGTQGGNFDGQTIWKHRFSMYFRMGNAVGQTEPMGYEELWWTVCNKPPTGSPVCIRYMNLYPGLDIMDTPSVAHALDEDLQDRFVGTFVIPEIGDN |
| Ga0209581_1000114113 | F031889 | AGGAG | MYGSIPEGGITIKVPNPPKAARVRLPTNDEMLGRLAHQKSIRRTIGRRKSQTEFVPNPQADLALFNQIRLDKDGPEFDEFEAGNAISKLTYCEVTGCERVGDEYRITLKTPFGDTTHTMKIPTQRDVTVYRRTVVSATDLPHGQEELRYRIEPAVDLYDSVVSKAEGYVDGLKISDVPPHHKSAVAVELVSALDDLDPSLDPNF |
| Ga0209581_1000114116 | F030458 | AGG | MPFQAKITRARFVLGPFTSEDMLEIGNVVVESIKGRLHKGLNINDQPAKPLKPGRNGKKGYPDYKAGRGLQPFRDWFWTGRTLRSLKVKSASENRCVIGFIDPNADRIAHVNNIRERAFGISPKDRLALTAIVRAVLRRARVVRVARAA |
| Ga0209581_1000114132 | F050849 | N/A | MSIRADFLEREAGHVVVCLILIAMGAGLWVLHVPKGEDLIPFALGVLGRSMVGRRPEEPP |
| Ga0209581_1000114141 | F046796 | GGAGG | MDVLENIIERISETQEQRDVYLRQAEAEEQKITKLEQMYYLLEDPATQELMKDVVVGMAVQNGVPVPNGNKGDAGEKHYVGMQRVREYVAEVPAKREFTVHDIFAASIAHMPSTPKIRHPEFEKQRKASISLALTSMAKAGDVEVVKQGRGREATVYRRPEGK |
| Ga0209581_1000114200 | F011110 | GGAG | MDKLWMKPPFGVGDPKEVDATPEVLTPLMVAGWSQCDPPADHEEVTTNVHD |
| Ga0209581_1000114203 | F001564 | N/A | LCPDAPEGGRCDHCPQDQLDAAQTSESGLLIRRALDLRAALNLGIHIGLDDIRADEFYTMLILDDERDQLERERINAHGK |
| Ga0209581_1000114226 | F046796 | AGGAGG | MDVLEGILERISQTQEQRNVYLRQAEEEEGKIAKLESMYYLLEDPTTQELMKDVVVGLAVQSGVAVPNGNKGDGGEKHYVGMQRVREYVKQVAAGQTFTVHEIYTASISHRGHGDPKYQHPEFERQRKASISLALTSMAKGGDLEVVKQGRGRECTVYRRAEGK |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |