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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_10000231 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) | 106698 |
| Total Scaffold Genes | 37 (view) |
| Total Scaffold Genes with Ribosome Binding Sites (RBS) | 28 (75.68%) |
| Novel Protein Genes | 8 (view) |
| Novel Protein Genes with Ribosome Binding Sites (RBS) | 6 (75.00%) |
| Associated Families | 7 |
| 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? |
|---|---|---|---|
| F003725 | Metagenome | 471 | Y |
| F005943 | Metagenome | 385 | Y |
| F014479 | Metagenome / Metatranscriptome | 262 | Y |
| F015182 | Metagenome | 256 | Y |
| F024756 | Metagenome | 204 | Y |
| F027375 | Metagenome | 194 | Y |
| F038017 | Metagenome | 166 | Y |
| Protein ID | Family | RBS | Sequence |
|---|---|---|---|
| Ga0307507_1000023110 | F024756 | GGA | MLIYNIAYYITAGESTSTNSLKRLVPYLGSIIVAGKIEISNLYKTFLDLLF |
| Ga0307507_1000023115 | F014479 | AGTAG | VTIIEGIYVFLSVAGNRRCARVFELLEHLSVRTYSAVLPKGLYYHNLLLLKGPSCLNATAFYKVSIEFPFRSSRDFKGGW |
| Ga0307507_100002312 | F027375 | N/A | LDIIPLSMLNKSHSSKNRSISSATVIIIIIAKYPKNFIYLLTITRIVLATSPILILVGGKPIIKSIINSNIGPYGIKSTNNLL |
| Ga0307507_1000023123 | F038017 | AGCAG | VVRLTRYRFKLKDKDKLRVNLKYVAHYILLWIAYVDDIYNIYRALKDKNRKYLVRIY |
| Ga0307507_100002313 | F005943 | AGG | MSRNGGNGYKTYVFEESIRRCAIDCKGRGCKEVIYPCVADISCTRGIYESTGFSYGGPCGWVP |
| Ga0307507_1000023130 | F038017 | GAG | VVRLTRYRFKLKDKDKLRVNLKYIAYYILSWIAYVDNICNMHRALKDKNRKYLVRIY |
| Ga0307507_1000023132 | F003725 | N/A | METLINLYIDLTEIAKLVQQRIKKYYNAKRSKGPDLKKGDKV |
| Ga0307507_100002314 | F015182 | GGCGG | MAKVISYFFKKIFLIFSVVLGKDSGMFLEFNIELVK |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |