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 Ga0307507_10002883

Scaffold Ga0307507_10002883


Overview

Basic Information
Taxon OID3300033179 Open in IMG/M
Scaffold IDGa0307507_10002883 Open in IMG/M
Source Dataset NamePopulus trichocarpa ectomycorrhiza microbial communities from riparian zone in the Pacific Northwest, United States - 7_EM
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)34683
Total Scaffold Genes13 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)7 (53.85%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (25.00%)
Associated Families4

Taxonomy
All Organisms → cellular organisms → Eukaryota → Opisthokonta(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: Oregon
CoordinatesLat. (o)44.5508Long. (o)-123.25Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F002793Metagenome529Y
F021494Metagenome218Y
F056201Metagenome137Y
F078050Metagenome / Metatranscriptome116Y

Sequences

Protein IDFamilyRBSSequence
Ga0307507_100028832F002793N/AMDIIPLVDNLEMLGIFKDKDKEKGDGVTDSLSIIL
Ga0307507_100028833F078050N/AMIGMVDIKEQLNKEKQLEDLRDSIRARRKDLDEITVQLTY
Ga0307507_100028834F021494GAGVFYVPTSASMFKFIIVSSSSPNLTSWLYALYRSAINIIFTVLSLILNCPGFKLAIDVYRGLPIGRPLPCVPYNPYVPCDPYVPI
Ga0307507_100028838F056201N/AMAPSRSIELRGPNTLTRKISYGRIPRWKIVVELSRKYLSIAYRGKEKN
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