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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |
| Basic Information | |
|---|---|
| Taxon OID | 3300030522 Open in IMG/M |
| Scaffold ID | Ga0307512_10003418 Open in IMG/M |
| Source Dataset Name | Populus trichocarpa ectomycorrhiza microbial communities from riparian zone in the Pacific Northwest, United States - 14_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) | 18529 |
| Total Scaffold Genes | 31 (view) |
| Total Scaffold Genes with Ribosome Binding Sites (RBS) | 12 (38.71%) |
| Novel Protein Genes | 4 (view) |
| Novel Protein Genes with Ribosome Binding Sites (RBS) | 2 (50.00%) |
| Associated Families | 4 |
| Taxonomy | |
|---|---|
| All Organisms → cellular organisms → Eukaryota → Opisthokonta → Fungi → Dikarya → Ascomycota → saccharomyceta → Pezizomycotina → Pezizomycetes → Pezizales | (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) | 45.6996 | Long. (o) | -121.669 | Alt. (m) | Depth (m) | Location on Map | |
| Zoom: | Powered by OpenStreetMap © | |||||||
| Family | Category | Number of Sequences | 3D Structure? |
|---|---|---|---|
| F004891 | Metagenome / Metatranscriptome | 419 | Y |
| F006048 | Metagenome | 382 | Y |
| F010438 | Metagenome | 303 | Y |
| F060560 | Metagenome | 132 | Y |
| Protein ID | Family | RBS | Sequence |
|---|---|---|---|
| Ga0307512_1000341819 | F060560 | N/A | MYADGFHNSIIDNKDGHILLPLIMFTCSALLHALVEWRKNKVVHPKASMSKLKADRPDHANYCNYKNGGGKNASCCAATGHKLLTSPGIADMYSFLMNTWNTLPESYQQRVFNNTLATAKCQIQQVENPTPAKVISVEAACVDNAILLDYLTSEVVLE |
| Ga0307512_1000341820 | F006048 | N/A | MLKQRRTLDIRHSNWYQIRAHVDKVKSHFIQSARDDIAELYDLRHFESTAECLEFIDSLLVDNKYLFPVAERVEGGVRGPNPTQRELKAANEWPASTLLPGESNPGDYLHQILSSGE |
| Ga0307512_1000341821 | F010438 | GGAG | MWCRRLFMSASNLEMVCYAMQCIAKALAEGPHWQIIEKYWNPAMQQNDIWSIAFEARPKVILKEVC |
| Ga0307512_1000341822 | F004891 | GGA | MIALASGLGMGVGQFSTPLRGVGVLAKPDAGLDTTRCVGSICEVPQGAGVLRLRVPIVAVGVFIDPRCALDGVEALC |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |