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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_10000553 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) | 80160 |
| Total Scaffold Genes | 31 (view) |
| Total Scaffold Genes with Ribosome Binding Sites (RBS) | 16 (51.61%) |
| Novel Protein Genes | 5 (view) |
| Novel Protein Genes with Ribosome Binding Sites (RBS) | 3 (60.00%) |
| Associated Families | 4 |
| Taxonomy | |
|---|---|
| All Organisms → cellular organisms → Eukaryota → Opisthokonta → Fungi → Dikarya → Ascomycota → saccharomyceta → Pezizomycotina → leotiomyceta → dothideomyceta → Dothideomycetes → Pleosporomycetidae → Pleosporales → Lophiotremataceae → Lophiotrema → Lophiotrema nucula | (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? |
|---|---|---|---|
| F002220 | Metagenome | 581 | Y |
| F006298 | Metagenome | 376 | Y |
| F020829 | Metagenome | 221 | Y |
| F067281 | Metagenome | 125 | Y |
| Protein ID | Family | RBS | Sequence |
|---|---|---|---|
| Ga0307507_1000055311 | F020829 | N/A | VPLVSSKLITNIIFSVYGTPLTLGLYTLIIYTSPLCVWIVITAISRLTACHDHKDRLIALLIIKHTRIAAFGSYRIVILYISKLAAVLSLF |
| Ga0307507_1000055320 | F067281 | N/A | MLGIYCTYASSRFNFRFIKLVTLKLHNYNSLEKIIIRRIEKHFIKRLNIVVLNTVSTLIRMSSVYALYIIGLSLN |
| Ga0307507_100005533 | F002220 | AGG | VHLLKSNSVIKLSFSFSFTIKFAFINLSSLRAKNWLSPKIIILLVYMPTILNGVPMVVIRKHRLNIEVVIKSFSL |
| Ga0307507_100005534 | F006298 | GAG | LVIKNSNGLYTIYLTILNKVLVRRVVLNFYIYKELFSLINLTLKVFYAFILNQEALEVGYSNLIISNISYTLIELIICLLLLIKGVSS |
| Ga0307507_100005537 | F002220 | AGG | MHPLKSNSIVKLSFSFSFIIRFAFTSLSSLRAKNWSSPKIIILLVYMPTIPNRVPMVVIRKQGLNIEVVIKSFSL |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |