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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |
| Basic Information | |
|---|---|
| Taxon OID | 3300028794 Open in IMG/M |
| Scaffold ID | Ga0307515_10000509 Open in IMG/M |
| Source Dataset Name | Populus trichocarpa ectomycorrhiza microbial communities from riparian zone in the Pacific Northwest, United States - 17_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) | 92904 |
| Total Scaffold Genes | 102 (view) |
| Total Scaffold Genes with Ribosome Binding Sites (RBS) | 35 (34.31%) |
| Novel Protein Genes | 3 (view) |
| Novel Protein Genes with Ribosome Binding Sites (RBS) | 1 (33.33%) |
| Associated Families | 3 |
| Taxonomy | |
|---|---|
| All Organisms → cellular organisms → Eukaryota → Opisthokonta → Fungi → Dikarya → Ascomycota → saccharomyceta → Pezizomycotina → leotiomyceta → Lecanoromycetes → OSLEUM clade → Lecanoromycetidae → Lecanorales → Lecanorineae → Parmeliaceae → Letharia → Letharia columbiana | (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) | 46.6992 | Long. (o) | -120.899 | Alt. (m) | Depth (m) | Location on Map | |
| Zoom: | Powered by OpenStreetMap © | |||||||
| Family | Category | Number of Sequences | 3D Structure? |
|---|---|---|---|
| F008531 | Metagenome | 332 | Y |
| F038958 | Metagenome | 164 | Y |
| F079413 | Metagenome / Metatranscriptome | 115 | Y |
| Protein ID | Family | RBS | Sequence |
|---|---|---|---|
| Ga0307515_1000050962 | F008531 | AGGA | MAHIIELALGVFMSSLMVKGRTKSWETHERDQQFGENESTVIGKSQRLRKEGNARIIKVSAVRPGLAKIIEKVHISRHFE |
| Ga0307515_1000050988 | F038958 | N/A | MTEIIANLFVDVHLSKAKLTLFLNGNCFLIASTVSVSSLQQMMLRVLADSYTNSRHNALYELCGSRFDIMIPGMXAETNPDMW |
| Ga0307515_1000050992 | F079413 | N/A | LDLGSETELQIQVKKLLFDDAYLSKVIDNQKAWFTQMEMLYSIYHQFFFTANSLGRQPTTSQFFQPLTPHALALVAAAIHCVLSEYATGEKVTVMFSQDEYQGKFCPSTVID |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |