 |
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_10000059 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) | 164159 |
| Total Scaffold Genes | 52 (view) |
| Total Scaffold Genes with Ribosome Binding Sites (RBS) | 33 (63.46%) |
| Novel Protein Genes | 8 (view) |
| Novel Protein Genes with Ribosome Binding Sites (RBS) | 7 (87.50%) |
| Associated Families | 8 |
| 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? |
|---|---|---|---|
| F002220 | Metagenome | 581 | Y |
| F002555 | Metagenome | 548 | Y |
| F003457 | Metagenome | 485 | Y |
| F006298 | Metagenome | 376 | Y |
| F009949 | Metagenome | 310 | Y |
| F021494 | Metagenome | 218 | Y |
| F050242 | Metagenome | 145 | Y |
| F067329 | Metagenome / Metatranscriptome | 125 | Y |
| Protein ID | Family | RBS | Sequence |
|---|---|---|---|
| Ga0307507_1000005917 | F021494 | GAG | VSYIPTSLSKSKSIIASGSSPVLAGWLYTPYKLAACVIFTALNLILNYPGLELAIAIYRGLPTRRPLPCVLYIPYIPIRSGNIARRHF |
| Ga0307507_1000005918 | F009949 | GGA | MGNTIGGKYLRALRGPNKGRKYNGNTLKDRNNRTKRLALLGGYSSG |
| Ga0307507_1000005926 | F002555 | AGTAG | LEILEIFKDKDKEEGDGVTDALSTMLRLLGEESAEAS |
| Ga0307507_1000005938 | F050242 | GGA | MRLCVPTSTAEDVSHFSLGSREVVRIDFKLVLQLKLPIIKCRVSSVYKQ |
| Ga0307507_1000005944 | F006298 | N/A | MERRLVIKNSNSLYTIYLTILSKVLVRRVVLNFHIYKELFGLINLTLKIFYAFILNQEALEVGYSNLIISNVSCTLTKLIICLLSLIKGVFS |
| Ga0307507_1000005945 | F002220 | AGGA | VHLLKSNGIIKLSFSFSFIIRFTFTNSSSLRAKNWLSPKIIILLVYMPTILNGVPMVIIRKHRLNIKVVIKSFSL |
| Ga0307507_100000595 | F067329 | AGG | VLGAGIADVSGIANITDIADVADIVTDIADIADIVNIADIAVEIGKCV |
| Ga0307507_1000005951 | F003457 | GGCGG | VCFFSAKAFLISAIIIAKIICSGFLASYASGVAPIIWMSKVLSELRLFLVSYIVSYLGLGLVSVIKLVLDLGLGSLSILFIVEY |
| ⦗Top⦘ |
|
Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |