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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |
| Basic Information | |
|---|---|
| Taxon OID | 3300031649 Open in IMG/M |
| Scaffold ID | Ga0307514_10000203 Open in IMG/M |
| Source Dataset Name | Populus trichocarpa ectomycorrhiza microbial communities from riparian zone in the Pacific Northwest, United States - 16_EM |
| 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) | 166276 |
| Total Scaffold Genes | 183 (view) |
| Total Scaffold Genes with Ribosome Binding Sites (RBS) | 112 (61.20%) |
| Novel Protein Genes | 12 (view) |
| Novel Protein Genes with Ribosome Binding Sites (RBS) | 8 (66.67%) |
| Associated Families | 8 |
| Taxonomy | |
|---|---|
| Not Available | (Source: ) |
| Source Dataset Ecosystem |
|---|
| Host-Associated → Plants → Roots → Unclassified → Unclassified → Ectomycorrhiza → Soil And Ectomycorrhiza Microbial Communities From Populus Trichocarpa Stands In Riparian Zones In The Pacific Northwest, United States |
| Source Dataset Sampling Location | ||||||||
|---|---|---|---|---|---|---|---|---|
| Location Name | USA: Washington | |||||||
| Coordinates | Lat. (o) | 46.6253 | Long. (o) | -120.532 | Alt. (m) | Depth (m) | Location on Map | |
| Zoom: | Powered by OpenStreetMap © | |||||||
| Family | Category | Number of Sequences | 3D Structure? |
|---|---|---|---|
| F004778 | Metagenome | 423 | Y |
| F004891 | Metagenome / Metatranscriptome | 419 | Y |
| F006048 | Metagenome | 382 | Y |
| F010438 | Metagenome | 303 | Y |
| F051592 | Metagenome | 143 | Y |
| F060560 | Metagenome | 132 | Y |
| F081952 | Metagenome / Metatranscriptome | 113 | Y |
| F081959 | Metagenome | 113 | Y |
| Protein ID | Family | RBS | Sequence |
|---|---|---|---|
| Ga0307514_10000203106 | F081952 | AGG | MVNAPKKNISPLPAGKYGKSTKQSTRRPEQANEGKRCSVVEWVRAVGALRSLQSEKKLAAEKRHETHCLWNEEREKWIEDYVERETAVARKRVQQRP |
| Ga0307514_10000203120 | F081959 | GGA | MSMGMRGRMATMRMRIRRKKHHKLMMDQRRMWRTEGIVLESVKIRLYISDL |
| Ga0307514_10000203123 | F010438 | N/A | MTRLVFATGRLLELYMWNRRPSMSASNFQAVRYTTRRVAKALAEAPYWQIVEPYWNTAMQRNNIWFIAFEARTKEILK |
| Ga0307514_10000203124 | F004891 | N/A | MIVRASGFGMVVGRFSRPLRGVGVLAMPDAGLDTTRLFEFVCMVPLGAGVLRLLVPGVAVGVMIDRRCVADGVEVTRCVISATRELFREDAGVEF |
| Ga0307514_10000203155 | F004778 | AGGA | MGHYTGARLAVQLQDVVYQCELTNCRLHGITTDISLSNYSMTCELQSTLEPSEMEWPAWWKHIPCTAHVIQLTLRTFSSSLGGKGGTKSWNAHERDQQFGENESIDIGKSPRLQKPGNARINKVSAIRPGFTMIIEEVSNS |
| Ga0307514_10000203166 | F060560 | N/A | MDGHIPSAMFMFTCIALRHALQEWQKNKGVHRKASKSKRQADRPDPSNYCNYKNDGGKNTSCCAAMGRKFVTWPGVADTYTFLINPGNTLPESYQQRVYKNPLATVKRQIQQVANSTPAVVISVEAARVDNAIHLDYLTSKVALEGPEVGSRDPNIPIDTNCMNG |
| Ga0307514_10000203167 | F006048 | N/A | MLDITHSNLYQVRVQVDKVKSHFIQSARENIAELYDLHLFESAAERLEFIDSLLADNKYLFRLAKHVEGGVCGPSSTQRESKAANKWPESTLFPGRSNPGIYLHHNLSSSELRW |
| Ga0307514_10000203168 | F004891 | GGAG | MLARASGLGMGVGSFSRPRRGVGVIIMPGAGLDTMRRVEVPRGAGVLRLLGPGVAAGVFI |
| Ga0307514_10000203176 | F051592 | GAG | VEIPLLELLKDADLHCMEEVGLREVAHNTGNVSKHIDTSVNMAQQEFVIGCIGVGIAVGS |
| Ga0307514_1000020323 | F051592 | GAG | VRLHEVENALLEVVMHADLHCMKEVGLREVAHNTGNVSKHVESSVNMARQEFRIGCLRVLIAECSI |
| Ga0307514_1000020331 | F006048 | AGGAG | MLKQRPTLDITSSNRYQVCAQVDKVTSYFVQSAKDNIAELYDLHRIECAAERLEFIDSLLADNRYLFPEAEGVEGGVHGLYRTQRESKSANEWPLSTLRPGGSNPAVSADQILSSGE |
| Ga0307514_1000020333 | F081959 | GAGG | VMLTGMSATMRMRMRRNKHHKLMTDQCTMWSTEGIILESVKIGQYFSDM |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |