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_10000029

Scaffold Ga0307507_10000029


Overview

Basic Information
Taxon OID3300033179 Open in IMG/M
Scaffold IDGa0307507_10000029 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)196880
Total Scaffold Genes76 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)49 (64.47%)
Novel Protein Genes8 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)6 (75.00%)
Associated Families8

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: Oregon
CoordinatesLat. (o)44.5508Long. (o)-123.25Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000630Metagenome971Y
F000746Metagenome908Y
F002220Metagenome581Y
F003457Metagenome485Y
F050927Metagenome144Y
F056213Metagenome137Y
F078050Metagenome / Metatranscriptome116Y
F102221Metagenome101Y

Sequences

Protein IDFamilyRBSSequence
Ga0307507_1000002910F078050GGAVDIKERLNKEKQLEDLREKVRARRKDLDNIMVQLTH
Ga0307507_1000002918F000746GGAVAIVGDIVEGIININYKVIVEVLIEVYFKVIARRSAIFIKS
Ga0307507_1000002919F002220AGGMHLLKSNSVVKLSFSFSFTIRFAFTSLSSLRAKNWLSLKIIILLVYMLTIPNRVPIVIIRKQGLNIGVVIKSFSL
Ga0307507_1000002923F003457GGCGGVCFFSTKAFLILAIVIVKIIYSGFLASYTSRVALIMWIFKVLSKLKSSLVSYVVSYLGLGLVLGIELVLDLGLGSLSILFIVEY
Ga0307507_100000295F102221GAGMGGIACVLKVVSPLFKAVNYSQQFLIVGIIPNFRSLEFSAIE
Ga0307507_1000002956F000630GGAGMGVKGTEAISGKRNPSRSMVNAIGGKHLRAPRRPNKGRKYNGNTLKNRNNRTKRLALLGRCSSR
Ga0307507_1000002961F050927N/AMPEYLATKKEGIVYFIYKLEPLLSINIDKEIVYKVIKEYISKVSNAYTRYMLDLYLF
Ga0307507_1000002967F056213N/AVDFSIRRSISLYYLLITFMQALRAPSRSIPIREVFSLGLRDLIRLLTSIELFQPISFT
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