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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_10000094 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) | 140465 |
| Total Scaffold Genes | 53 (view) |
| Total Scaffold Genes with Ribosome Binding Sites (RBS) | 30 (56.60%) |
| Novel Protein Genes | 8 (view) |
| Novel Protein Genes with Ribosome Binding Sites (RBS) | 3 (37.50%) |
| Associated Families | 8 |
| Taxonomy | |
|---|---|
| All Organisms → cellular organisms → Eukaryota → Opisthokonta | (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 |
| F002793 | Metagenome | 529 | Y |
| F007161 | Metagenome | 356 | Y |
| F016500 | Metagenome | 246 | Y |
| F032886 | Metagenome | 178 | Y |
| F056201 | Metagenome | 137 | Y |
| F096350 | Metagenome | 104 | Y |
| Protein ID | Family | RBS | Sequence |
|---|---|---|---|
| Ga0307507_1000009414 | F000247 | GGA | VHTYIISVALSYKRILRMEVAHTNCLTGSLSIYIGKTPVSSSGVPFAYLSIDGKPYYNSGLFLNKSIDLTSTSL |
| Ga0307507_1000009430 | F096350 | AGG | MARSVCFFSAKAFLISAIITAKIICSSFLVSYISGVALII |
| Ga0307507_1000009433 | F002793 | N/A | MDITPLVNNLEILGIFKDENKEEGDGVIDTLSIML |
| Ga0307507_1000009435 | F056201 | N/A | MAPSRSIELRGPNTLARKISYRRVPRGIIVVELPREYLSIAYKGKEKN |
| Ga0307507_1000009436 | F032886 | GGA | MIIKLEYLLISSNKGKREANWGHLNLNNATEAETETTIKCSSVMGIIIPLDIASITL |
| Ga0307507_1000009442 | F000746 | N/A | MIITRLIEYIIAVVGDTVEGTISVNHKVIVEVLIEVYFKVIAKRSTIFARSQIAS |
| Ga0307507_1000009445 | F016500 | N/A | MDKLIVEIIKAKKGLGPFYSIRGLLVMDCLNLLRVNFNPFYANNEPKVLYAFYSKFTFLNINL |
| Ga0307507_1000009447 | F007161 | N/A | VLQYLINRCKLNRRLVLELGLKVLLGVPNGLTKEVKHFGFLRGEIVIVNIELSLYLDPLILKGRVYPIR |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |