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_10001846

Scaffold Ga0307507_10001846


Overview

Basic Information
Taxon OID3300033179 Open in IMG/M
Scaffold IDGa0307507_10001846 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)46296
Total Scaffold Genes17 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)13 (76.47%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (60.00%)
Associated Families5

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?
F003457Metagenome485Y
F014479Metagenome / Metatranscriptome262Y
F016500Metagenome246Y
F041034Metagenome160Y
F102221Metagenome101Y

Sequences

Protein IDFamilyRBSSequence
Ga0307507_1000184610F014479GGAGGLLSSSAASIIEGVYVFLSGNYRYAKVFKLLAHLGIKAYLAILPRGLYYRNLLLLEGPSCLNATAFYKVFIEFPFRSSRDFKGG
Ga0307507_1000184612F003457N/AVCSGFLASCANKVALIMWISKVLSELRSSLVSYTVSYLVSDLVLDLVLNTELVLDLGSGSLSILFIVEYQFF
Ga0307507_1000184613F041034AGGVDVSGILILMESGEILRSVELGGLFRYRVDVGRNFKLVDPSGFFGFRFRV
Ga0307507_1000184614F102221AGTAGMLKVVLLLFKAVNYSQQFLIIGVIPNFKSLGFSAIECYWSLVELGSV
Ga0307507_100018462F016500N/AMDKLIVEVTEAKKELDTFYYIRGFPIIYRLNLFRVNFNSFYTNNKPKVLYSLYSKFIFLNINL
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Institute for Fundamental Biomedical Research
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