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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_10000028 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) | 199862 |
| Total Scaffold Genes | 131 (view) |
| Total Scaffold Genes with Ribosome Binding Sites (RBS) | 85 (64.89%) |
| Novel Protein Genes | 6 (view) |
| Novel Protein Genes with Ribosome Binding Sites (RBS) | 3 (50.00%) |
| 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: 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? |
|---|---|---|---|
| F000247 | Metagenome | 1464 | Y |
| F000746 | Metagenome | 908 | Y |
| F004663 | Metagenome | 428 | Y |
| F021494 | Metagenome | 218 | Y |
| F041034 | Metagenome | 160 | Y |
| F081096 | Metagenome | 114 | Y |
| Protein ID | Family | RBS | Sequence |
|---|---|---|---|
| Ga0307507_1000002811 | F004663 | AGGA | MGVLEESRLGNINKEESPKNKLPKGDLRGAIAELLRVVFLVGGEPVLLLPSSYRPY |
| Ga0307507_10000028124 | F000746 | N/A | MVAVVGNIEEGIININYKVTVEVLVEVYFKVIARRSAIFIRS |
| Ga0307507_10000028129 | F021494 | N/A | MELSISVFYVPTSLSKSEFIIASGSSLVLAGWLYAPYKPAVCIIFTALNLILDYPSLELAVAVYRGLPTGRPLSCVLYVPYIPIRSSNIARRCF |
| Ga0307507_10000028131 | F081096 | N/A | MHIYRGGYRENTGQLDKDLIVKDTGQLIKGGDISLVSRRGESRLSSIRPSVSTAPLL |
| Ga0307507_1000002814 | F000247 | AGG | VYTYTISVALSYKRIPRTEVAYTNYLASSLNIFIGKTPVPSSSALFAYPSIDRKPYYNSSLPLNKSIDLTSISL |
| Ga0307507_1000002827 | F041034 | GAG | VWSSINFRFLVDVGGNLILVEFGGILGLVEFGGILRLVELGRLFRYRIDVSGNFKLVDPSRFFRS |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |