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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_10000244 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) | 105821 |
| Total Scaffold Genes | 29 (view) |
| Total Scaffold Genes with Ribosome Binding Sites (RBS) | 8 (27.59%) |
| Novel Protein Genes | 10 (view) |
| Novel Protein Genes with Ribosome Binding Sites (RBS) | 3 (30.00%) |
| Associated Families | 9 |
| Taxonomy | |
|---|---|
| All Organisms → cellular organisms → Eukaryota → Opisthokonta | (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? |
|---|---|---|---|
| F000746 | Metagenome | 908 | Y |
| F002220 | Metagenome | 581 | Y |
| F004318 | Metagenome / Metatranscriptome | 443 | Y |
| F006298 | Metagenome | 376 | Y |
| F019457 | Metagenome | 229 | Y |
| F038927 | Metagenome / Metatranscriptome | 164 | Y |
| F041034 | Metagenome | 160 | Y |
| F050927 | Metagenome | 144 | Y |
| F096350 | Metagenome | 104 | Y |
| Protein ID | Family | RBS | Sequence |
|---|---|---|---|
| Ga0307507_1000024413 | F096350 | AGTAG | MAGLVCFFGARAFLILAIVILKIVYLGFLVSYTNRVALIM |
| Ga0307507_1000024415 | F004318 | N/A | VLSGLRSSLVSYVVLGLVLDLVLDTELVLDLVLGLVLGAELVLDLGLGSLSILFIVEYQF |
| Ga0307507_1000024416 | F041034 | N/A | VDVSGNLILVEFGGIPRLIELGGLFRYRVDISGNFRLVDTSGFFKF |
| Ga0307507_1000024421 | F019457 | GGA | MQTNNTIILGDDQFSALKEDKLVKANLIAKLKEKLSLITLLLFNGYILSLNEDSIALR |
| Ga0307507_1000024423 | F006298 | N/A | MEHRLVIKNSNSLYTIYLTILSKVLVRRVVLNFYIYKELFDLINLTLKVFYAFVLNQEALEVGYNNLIISDVSYTLTELVICLFSLIKGVSS |
| Ga0307507_1000024424 | F000746 | GGA | MVAIVGNIEEGTININYKATVEVLIEVYFKVIARRSAMFIKS |
| Ga0307507_1000024425 | F002220 | N/A | LFRERVHLLKSNSVVKLSFSFSFAIRFAFTNLSSLRAENWLSPKIIILLVYMPIIPNRVPMVVIRKYRLNIEIVIKSFSL |
| Ga0307507_1000024426 | F006298 | N/A | MERRLVIKNSNGLYTIYLTILSKVLVRRVVLNFYIYKELFSLINLTLKIFYAFILNQEALEVGYSNFIIFNISCTLTKLVIYLLLLIKGVSS |
| Ga0307507_100002444 | F038927 | N/A | MKEIIANGLIKALPKQRFQNFVNLVGIVDIKERLNKEKQLEDLREKVRAGRKDSDDIIV |
| Ga0307507_100002447 | F050927 | N/A | MPEYPATRKEGIAYFIYKATPLLSIDADKETVREVIKQYMLKVCNIYARYMLYLYL |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |