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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_10000041 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) | 181562 |
| Total Scaffold Genes | 67 (view) |
| Total Scaffold Genes with Ribosome Binding Sites (RBS) | 36 (53.73%) |
| Novel Protein Genes | 12 (view) |
| Novel Protein Genes with Ribosome Binding Sites (RBS) | 4 (33.33%) |
| Associated Families | 11 |
| 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? |
|---|---|---|---|
| F000247 | Metagenome | 1464 | Y |
| F003725 | Metagenome | 471 | Y |
| F004318 | Metagenome / Metatranscriptome | 443 | Y |
| F009949 | Metagenome | 310 | Y |
| F020829 | Metagenome | 221 | Y |
| F021494 | Metagenome | 218 | Y |
| F032886 | Metagenome | 178 | Y |
| F056213 | Metagenome | 137 | Y |
| F067281 | Metagenome | 125 | Y |
| F081096 | Metagenome | 114 | Y |
| F084969 | Metagenome | 111 | Y |
| Protein ID | Family | RBS | Sequence |
|---|---|---|---|
| Ga0307507_100000411 | F009949 | N/A | IGNTMGGKYLRALRGPNKGRKYNSNTLKDRNNRTKRLALLGRCPSG |
| Ga0307507_1000004113 | F067281 | AGG | MLGIYCTYTSSKFNFCFIKPVTLKLHNYNSLEKTIIRRVEKHFIKRLNVAALNTASTLIRMSSVYTPHIIGLSLN |
| Ga0307507_1000004119 | F021494 | AGG | VSCVPTSASISKSVIVSSSSPSLTSWLYALYRSAANVRFAAFSLILNYPGLKLAIAVYRGLSIGRPLPCVPYNPYIPIRSSNIAQRHFWPVKAWDGWPSPLVLKVGNAGKAPVSP |
| Ga0307507_1000004120 | F020829 | GAGG | MSPNRIDSVPFIANIIFSIYGTLLTLGLYTLIIYTGPLYIWIVITIISRLTAYYNHKDRLIALLIIKHTHMATFSLYRS |
| Ga0307507_1000004123 | F081096 | N/A | MHTYGGGYRGNIGQSDKDSTVRDTGQLIKGGDTSLVSRRGESRLSSMGPSISTAPLLQDTVGLL |
| Ga0307507_1000004126 | F081096 | N/A | MHIYRGGYRGNTGQLDKDLIVRDIGQLIKGGDISLVSRRGESRLSGIGPSISTAPLLQDTVGLL |
| Ga0307507_100000415 | F000247 | AGG | VHTYIKRITLSYKRIPYTKAARTNCLASSLNIFIGKTPVSSSGVLFTRPSIDGKLYYNSSLSLNRSIDLTSTSL |
| Ga0307507_1000004150 | F084969 | N/A | MLLKVLVIMLSIAAITLGLGGDTSIGDIDSQLVIVG |
| Ga0307507_1000004153 | F004318 | N/A | MLRVLGKLLLSIVSYMVSYSILGLVLGIELVLGIELVLDLGLGSLSILFIV |
| Ga0307507_1000004155 | F003725 | N/A | MEMLINLYNYLKKTAKLVQEKIKKYYNTRRSKGPDLKEGDKVWLLYKNFKS |
| Ga0307507_1000004164 | F032886 | N/A | MELKYLLINSNKEEKGANWERLNLNNVIKAETKTTIERGLVMGFIIPLDIKSIAL |
| Ga0307507_100000417 | F056213 | N/A | VDFGVRHSILLYCLLIIFTQALRAPSRSIPIREVFSLGLRDLIRLLTSAELFQPVSFI |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |