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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_10000273 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) | 101459 |
| Total Scaffold Genes | 59 (view) |
| Total Scaffold Genes with Ribosome Binding Sites (RBS) | 33 (55.93%) |
| 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 | (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? |
|---|---|---|---|
| F000247 | Metagenome | 1464 | Y |
| F002220 | Metagenome | 581 | Y |
| F003457 | Metagenome | 485 | Y |
| F014479 | Metagenome / Metatranscriptome | 262 | Y |
| F027375 | Metagenome | 194 | Y |
| F041034 | Metagenome | 160 | Y |
| Protein ID | Family | RBS | Sequence |
|---|---|---|---|
| Ga0307507_1000027343 | F014479 | N/A | VGLEGFRLFSGSVASVIEGVCVFLSGNYRYIRVFELLVHLGIRARLAVLPRGLYYRNLLLSEGPFCLSATAFHKVFVEFPLRSSQDFKGG |
| Ga0307507_1000027344 | F000247 | AGG | VRTNTIYIALSYKRTPRTGVAYTNCLTSSLNIFVGKTPVPSSGVPFAHLCTGGKLYYNGGLSLNRSIDPTSISL |
| Ga0307507_100002735 | F002220 | AGG | MHPLKSNSVVKLSFFFSFAIRFAFTSLSSLRAKNWSSPKIIILLVYMLIIPNGIPIIIIRKQGLNIKVVIKSFSL |
| Ga0307507_100002736 | F027375 | N/A | LNTVPLLDIIPLSMLNRSYRSKNRSASSAAVIIIKTAKYPKNFVYLLMITRIALAISLVLILVGGKPIIKFIINSDMGLLVSQGDIT |
| Ga0307507_100002738 | F003457 | AGCAGG | VYFFSARAFLISAIIMVKIIYLGFLASYANRVAPIIWIFKVLSELRLSLVSYIVFYLGLGLVLGIELVLDLGLGSLSILFIVEYQFF |
| Ga0307507_100002739 | F041034 | AGG | VDVSRSLTLVEFGGILRLVELGGLFRYRVDVSRNLILVEFSRIL |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |