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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |
| Basic Information | |
|---|---|
| Taxon OID | 3300028794 Open in IMG/M |
| Scaffold ID | Ga0307515_10001034 Open in IMG/M |
| Source Dataset Name | Populus trichocarpa ectomycorrhiza microbial communities from riparian zone in the Pacific Northwest, United States - 17_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) | 63620 |
| Total Scaffold Genes | 34 (view) |
| Total Scaffold Genes with Ribosome Binding Sites (RBS) | 24 (70.59%) |
| Novel Protein Genes | 7 (view) |
| Novel Protein Genes with Ribosome Binding Sites (RBS) | 6 (85.71%) |
| 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: Washington | |||||||
| Coordinates | Lat. (o) | 46.6992 | Long. (o) | -120.899 | Alt. (m) | Depth (m) | Location on Map | |
| Zoom: | Powered by OpenStreetMap © | |||||||
| Family | Category | Number of Sequences | 3D Structure? |
|---|---|---|---|
| F000247 | Metagenome | 1464 | Y |
| F015182 | Metagenome | 256 | Y |
| F038927 | Metagenome / Metatranscriptome | 164 | Y |
| F054477 | Metagenome | 139 | Y |
| F071034 | Metagenome | 122 | Y |
| F088008 | Metagenome / Metatranscriptome | 109 | Y |
| Protein ID | Family | RBS | Sequence |
|---|---|---|---|
| Ga0307515_1000103422 | F071034 | AGGAG | LRYFTTLVAVPAINISFCLRIFCLFSSFFIVKTIEPNLVYRSCLFILDEIYLGSPCILIGLKVLISSFRSLEPPSPKKGRVGTLWAII |
| Ga0307515_1000103423 | F088008 | GAG | VLLQLIIKGSFSCNVITLNSLLIKIASFAVYNRANSLASVLNVITVPCLFAL |
| Ga0307515_1000103427 | F000247 | AGG | VHTYIIYITLNYKRTLYIEVAYTSCLANSLNIFISKTLVPSSGVLFTRPFIDRKLYYNSSLSLDKSIDPTSIGL |
| Ga0307515_1000103428 | F038927 | GGA | MKALPKQRFKSFVNIIGMVDIKERLNEEKQLEDLREKVRARRKDLDEITVQLTHGRTREG |
| Ga0307515_1000103429 | F088008 | GAG | VLSHLIIKGSFSYNVITLNSLLIKIASFTICNRANNLAFILDVITVLYLFAL |
| Ga0307515_1000103432 | F054477 | N/A | VSISLGVRANKLNSPGINWRYRLSVGIGLFFRFNIVANKEYYLTIIGSLEV |
| Ga0307515_1000103433 | F015182 | GGCGG | VTKVISNFFKEILLVFSIVLGKGSSVLLEFNIELVK |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |