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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |
| Basic Information | |
|---|---|
| Taxon OID | 3300033180 Open in IMG/M |
| Scaffold ID | Ga0307510_10001297 Open in IMG/M |
| Source Dataset Name | Populus trichocarpa ectomycorrhiza microbial communities from riparian zone in the Pacific Northwest, United States - 12_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) | 27255 |
| Total Scaffold Genes | 26 (view) |
| Total Scaffold Genes with Ribosome Binding Sites (RBS) | 19 (73.08%) |
| Novel Protein Genes | 3 (view) |
| Novel Protein Genes with Ribosome Binding Sites (RBS) | 3 (100.00%) |
| Associated Families | 3 |
| Taxonomy | |
|---|---|
| All Organisms → cellular organisms → Bacteria → Proteobacteria | (Source: IMG/M) |
| 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) | 45.654 | Long. (o) | -122.839 | Alt. (m) | Depth (m) | Location on Map | |
| Zoom: | Powered by OpenStreetMap © | |||||||
| Family | Category | Number of Sequences | 3D Structure? |
|---|---|---|---|
| F001784 | Metagenome / Metatranscriptome | 635 | Y |
| F020218 | Metagenome / Metatranscriptome | 225 | Y |
| F028212 | Metagenome / Metatranscriptome | 192 | Y |
| Protein ID | Family | RBS | Sequence |
|---|---|---|---|
| Ga0307510_1000129715 | F001784 | GGA | MGEVIHVAFGTEREWEQTHEKTVDGLVTIGSLFGDDENLMRAKADCVYHVLREIVEEVPSVQITTKLPENLTPEQLDALTRVIKEAALKGIEIAMTHSVQVLMGSIYDLCTSKLHTYRQ |
| Ga0307510_1000129719 | F020218 | AGGAG | MPFSRKFVLASAVAAQCLIATLAGAPARAANAIPGYFFKEWTVSKNCTEQQAGLAARVATGLKFKISADSADTDGGYVFQAEDVGSSHWAANWNGMKLQYRAGSNIQTLPADFECIPGQEATSPFLAMSNYAQATEPYYEQAHWYGITRIHGQLEHVLIFPRNSSTGPAAVIVMQSVASPGAVRLDDNGVIHMQ |
| Ga0307510_1000129722 | F028212 | GGAGG | MDHIQFKANQTAAGYVANGLDESTQEAFELHMMGCSECVADVEVWRAIKLEMPRPSVQVRTLTPRRKLAAFSDWRMAASLVGAGVIGATGGWLGKATTATDLDSTRTVVFNLPSVSRGADDCTAVRLASDTRLAVLRVPGVSRDLRVAALDSEKRELPAGDYASRIQPDGSQLLKIDAQLLAGRQVHLEARRADGTGEPLGCITGVLP |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |