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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_10000406 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) | 96461 |
| Total Scaffold Genes | 103 (view) |
| Total Scaffold Genes with Ribosome Binding Sites (RBS) | 66 (64.08%) |
| Novel Protein Genes | 4 (view) |
| Novel Protein Genes with Ribosome Binding Sites (RBS) | 4 (100.00%) |
| Associated Families | 4 |
| Taxonomy | |
|---|---|
| All Organisms → cellular organisms → Eukaryota → Opisthokonta → Fungi → Dikarya → Ascomycota → saccharomyceta → Pezizomycotina → Pezizomycetes → Pezizales → Pyronemataceae | (Source: UniRef50) |
| 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? |
|---|---|---|---|
| F004891 | Metagenome / Metatranscriptome | 419 | Y |
| F060560 | Metagenome | 132 | Y |
| F063295 | Metagenome / Metatranscriptome | 129 | Y |
| F081959 | Metagenome | 113 | Y |
| Protein ID | Family | RBS | Sequence |
|---|---|---|---|
| Ga0307514_1000040610 | F081959 | AGGA | MVEPVMTTGMRARMATMQMRRKQHRKLTVDQRRMWRTEGIVLESVKIGQYISDL |
| Ga0307514_1000040611 | F060560 | AGGA | MPSPLILFICTTLRHALLEWQKNKGVHQKASKSKLKADRPDRSNYFNYKNDGGKIPSCCAVPGRKLLTLPVIADMYSFLINTWNTQPESYPQRVYKNTLAIVKRHIQQEENPTPAAVISVEAARVDNAILLEYLTSEVVLEEPEIGCTDPNIPIDNNCTDDKLMFRMPGDSGDYEDEGDESDERDAISTASWQ |
| Ga0307514_1000040614 | F004891 | GGAG | MIARASGLGMGVGRFSRPLREVGVLAMPDAGLDTMRRIESVCKVSPGAGVLRLLVPGIAVGVLIDCRSVADGAVVMP |
| Ga0307514_1000040627 | F063295 | GAGG | MLNGHLLWQQQQLFKIKPHNKDEAFIEYWLALALTTIPENSGSLDPVSKFVQVRKAPAASALEVFSVGNIVGCTHVIPGIATSSKTGDGRNKRWIVNSHIDLATWNDVYN |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |