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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |
| Basic Information | |
|---|---|
| Taxon OID | 3300033179 Open in IMG/M |
| Scaffold ID | Ga0307507_10000539 Open in IMG/M |
| Source Dataset Name | Populus trichocarpa ectomycorrhiza microbial communities from riparian zone in the Pacific Northwest, United States - 7_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) | 80623 |
| Total Scaffold Genes | 42 (view) |
| Total Scaffold Genes with Ribosome Binding Sites (RBS) | 31 (73.81%) |
| Novel Protein Genes | 6 (view) |
| Novel Protein Genes with Ribosome Binding Sites (RBS) | 4 (66.67%) |
| Associated Families | 6 |
| Taxonomy | |
|---|---|
| All Organisms → cellular organisms → Eukaryota → Opisthokonta → Fungi → Dikarya → Ascomycota → saccharomyceta → Pezizomycotina → leotiomyceta → dothideomyceta → Dothideomycetes | (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: Oregon | |||||||
| Coordinates | Lat. (o) | 44.5508 | Long. (o) | -123.25 | Alt. (m) | Depth (m) | Location on Map | |
| Zoom: | Powered by OpenStreetMap © | |||||||
| Family | Category | Number of Sequences | 3D Structure? |
|---|---|---|---|
| F004318 | Metagenome / Metatranscriptome | 443 | Y |
| F005943 | Metagenome | 385 | Y |
| F007161 | Metagenome | 356 | Y |
| F016500 | Metagenome | 246 | Y |
| F056213 | Metagenome | 137 | Y |
| F064575 | Metagenome | 128 | Y |
| Protein ID | Family | RBS | Sequence |
|---|---|---|---|
| Ga0307507_100005391 | F005943 | AGG | MSRDGGNGYRTYVFGESTRRYAIDRKDRGRKEVIYLRVADVSRTRGVRESTGLSYCHDDEVSHCER |
| Ga0307507_1000053940 | F004318 | N/A | MSKVLSEFRLFLVFYIVSYLGLGLVLVTELVLDLGLGSLSILFIVEY |
| Ga0307507_1000053941 | F056213 | N/A | VDFGVRRSILLYHLLIMFMQVLRAPGRSIPIREVFSLGLRDLIRLLTSIKLFQPISFA |
| Ga0307507_100005396 | F064575 | AGG | MAPKASLFKRAALTQEEHEIQLGLEIKDNNNIIDVHKQICALTAN |
| Ga0307507_100005397 | F007161 | AGCAG | VPYYFINGCKSDRGIVLKLGLKVPLGVPYGLTKEVKHFGFFGKEIVVINAELSSYLNPLIFKGRVYPVG |
| Ga0307507_100005399 | F016500 | GGA | VIEVAEAKEGLDPLYSARGFLVMDCFNLFRVNLNSFHTNNKPEVLCSFYPKLIFLNIDL |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |