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 Ga0307509_10000023

Scaffold Ga0307509_10000023


Overview

Basic Information
Taxon OID3300031507 Open in IMG/M
Scaffold IDGa0307509_10000023 Open in IMG/M
Source Dataset NamePopulus trichocarpa ectomycorrhiza microbial communities from riparian zone in the Pacific Northwest, United States - 10_EM
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)242310
Total Scaffold Genes204 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)146 (71.57%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Associated Families3

Taxonomy
All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria(Source: IMG/M)

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)46.0356Long. (o)-122.86Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F065829Metagenome / Metatranscriptome127Y
F068913Metagenome / Metatranscriptome124Y
F099854Metagenome / Metatranscriptome103Y

Sequences

Protein IDFamilyRBSSequence
Ga0307509_10000023109F065829GGAGMNRRLMCFALITLVAAGAETTRADVVADTVVIKVGQDLYVSFTANGDSLVSPKTVPDANGPDPIVSLQLTQSGPTRTLQVTNGYARSIGYRAKTRKRGSRKEVELPVSAVRSGMQSTMSLTEPFDELVLFEFHLQG
Ga0307509_10000023117F099854GAGLPGRGLLTVACLVFIALCCISVVRKLESERRLLKKLRARGAVDDSNAVPLRELTEDERDCAQQLAVAGVLTIRQNRCYLRSTEMPVFRRKRVRLAMSGALGALVLALAVAVLILHR
Ga0307509_10000023157F068913N/AMEFLLLWWDDLDDFAHACRHLATSAISEVAEVSAPLVTSLSAAAAWLLPRL
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