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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_10001900 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) | 45482 |
| Total Scaffold Genes | 21 (view) |
| Total Scaffold Genes with Ribosome Binding Sites (RBS) | 15 (71.43%) |
| Novel Protein Genes | 7 (view) |
| Novel Protein Genes with Ribosome Binding Sites (RBS) | 6 (85.71%) |
| Associated Families | 7 |
| Taxonomy | |
|---|---|
| All Organisms → cellular organisms → Eukaryota → Opisthokonta → Fungi → Dikarya → Ascomycota → saccharomyceta → Pezizomycotina → leotiomyceta → dothideomyceta → Dothideomycetes | (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? |
|---|---|---|---|
| F000630 | Metagenome | 971 | Y |
| F000746 | Metagenome | 908 | Y |
| F002220 | Metagenome | 581 | Y |
| F006298 | Metagenome | 376 | Y |
| F015182 | Metagenome | 256 | Y |
| F021494 | Metagenome | 218 | Y |
| F054477 | Metagenome | 139 | Y |
| Protein ID | Family | RBS | Sequence |
|---|---|---|---|
| Ga0307507_100019001 | F021494 | AGG | VFYVPTSASISKSIIVSGSSPSLTSRLYALYRSAINVRFAAFSLILNYPGLKLAIAVYRGLPIGRPLPCVPYNPYVPI |
| Ga0307507_1000190015 | F006298 | N/A | MERRLVVKDSNSLYTIYLTILSKVLVGRVVLNFYIYKELFGLVNLTLKIFFAFILNQEALEVGYSNLTISNILCALAKLIIYLFLSIKRVPS |
| Ga0307507_1000190016 | F002220 | GAG | MVKLSFSFSFAIRFAFTSSSSLRAKNWLSPKIIILLVCILIIPNGVPVVIIRKQGLNIEVVIKSFSL |
| Ga0307507_1000190020 | F015182 | GGCGG | VTKAISNFFKEIFLVFSIVLGKGSSVFLEFNIELIK |
| Ga0307507_1000190021 | F054477 | AGGA | VSTSLGVKARANKSNSSGIDWRRRLSIGIRLFFRFNIVASKEYCLTIMGSLEV |
| Ga0307507_100019004 | F000746 | AGTAGG | MVEGIINDYKVKVEVLIEVYFKVIARRSAMFVRNRIAS |
| Ga0307507_100019006 | F000630 | GAG | MGVKGTEANLGKRNLSYSIVNTMGGKHLRALRRPNKGRKYNGNTLKNRDNRTKRLALLGRYPSRQPKI |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |