NMPFamsDB

NMPFamsDB

NMPFamsDB

A database of Novel Metagenome Protein Families

A database of Novel Metagenome Protein Clusters

A database of Novel Metagenome Protein Clusters
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Scaffold Ga0307515_10001234

Scaffold Ga0307515_10001234


Overview

Basic Information
Taxon OID3300028794 Open in IMG/M
Scaffold IDGa0307515_10001234 Open in IMG/M
Source Dataset NamePopulus trichocarpa ectomycorrhiza microbial communities from riparian zone in the Pacific Northwest, United States - 17_EM
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)58333
Total Scaffold Genes76 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)47 (61.84%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (40.00%)
Associated Families5

Taxonomy
All Organisms → cellular organisms → Eukaryota → Opisthokonta → Fungi → Dikarya → Ascomycota → saccharomyceta → Pezizomycotina(Source: UniRef50)

Ecosystem & Geography

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 NameUSA: Washington
CoordinatesLat. (o)46.6992Long. (o)-120.899Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F004891Metagenome / Metatranscriptome419Y
F036505Metagenome169Y
F038958Metagenome164Y
F081959Metagenome113Y
F088003Metagenome / Metatranscriptome109Y

Sequences

Protein IDFamilyRBSSequence
Ga0307515_1000123453F004891GGAMIAQAFGLGMGVGRFSRPLGGVGVLAMPDAGLDTMRRVGSVCEIPLGAGVLRLRVPSMVVGVFIDRHCVADRVISAT
Ga0307515_1000123456F081959GGAMSTGMSARMATMKMRMRRNKHHKPMMDQRRMWRTKGIVLESVKIGLYISDL
Ga0307515_1000123466F088003N/AMKAFIRTVREIKDYDVVSSGIFADGFRDKCPQEWTKQASKTLEEATESYMVEVIAEASI
Ga0307515_1000123473F038958N/AMTDVIANLFVDVHPSKAKLTLFVDGNCFLIASTVSVYSLRQIILRVLADGDTNSLRNALYDRRSSRFDIAFHGICPKTKPNMRYRFQVPW
Ga0307515_1000123474F036505N/AMAHLIQLSLGAFMSSPGVQGRTKSWEAHERDQQFGENKSTDIGKSQRLRKEGNASINKVSAMRPGLAKIIEKVRISTYYESAETDLHIGENAYCIDYAGTWTSKRVY
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