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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |
| Basic Information | |
|---|---|
| Taxon OID | 3300028786 Open in IMG/M |
| Scaffold ID | Ga0307517_10003350 Open in IMG/M |
| Source Dataset Name | Populus trichocarpa ectomycorrhiza microbial communities from riparian zone in the Pacific Northwest, United States - 23_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) | 24928 |
| Total Scaffold Genes | 35 (view) |
| Total Scaffold Genes with Ribosome Binding Sites (RBS) | 12 (34.29%) |
| Novel Protein Genes | 5 (view) |
| Novel Protein Genes with Ribosome Binding Sites (RBS) | 2 (40.00%) |
| Associated Families | 5 |
| Taxonomy | |
|---|---|
| All Organisms → cellular organisms → Eukaryota → Opisthokonta → Fungi → Dikarya → Ascomycota → saccharomyceta → Pezizomycotina → Pezizomycetes → Pezizales → Tuberaceae | (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) | 48.4473 | Long. (o) | -122.323 | Alt. (m) | Depth (m) | Location on Map | |
| Zoom: | Powered by OpenStreetMap © | |||||||
| Family | Category | Number of Sequences | 3D Structure? |
|---|---|---|---|
| F012738 | Metagenome | 277 | Y |
| F036154 | Metagenome | 170 | Y |
| F061411 | Metagenome | 131 | Y |
| F071808 | Metagenome | 121 | Y |
| F074206 | Metagenome | 119 | Y |
| Protein ID | Family | RBS | Sequence |
|---|---|---|---|
| Ga0307517_1000335013 | F061411 | N/A | MRGFEWANGGGKAVKLVRCGPIAGMFERRTRESGAIIQALELRYEIKGLALSLEIFQQCDSGRRVVKGKIT |
| Ga0307517_1000335015 | F036154 | AGGA | MDYSKAGMHAPVLGQMYWLGTKVHEDKSGNVELQRKKMVSGFLDRDDTEYNWIVDALGAGIYIRAPAHSMERMRSGSTSSRVVMGLVHCTIVDSDSDSEIEAYPENCGA |
| Ga0307517_1000335016 | F074206 | N/A | MLSAYALDMCFGRMFSAYVLGVCFGRMLWAYALSLCFKCMTVERMDLGTSLWVHGFGRMSLRAWILPKKPEAKD |
| Ga0307517_1000335022 | F071808 | GAG | MKKRSRIAALRAERPEDSVDGESVDGEGRSVVRKKRS |
| Ga0307517_1000335027 | F012738 | N/A | MSCGRPTDQKLFAGYIRGVTVAASWGATWITPGNHLQAYFDLRVVVWLTVEGLGLTKEAARLPGQPPQSQSRATP |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |