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_10001238

Scaffold Ga0307515_10001238


Overview

Basic Information
Taxon OID3300028794 Open in IMG/M
Scaffold IDGa0307515_10001238 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)58228
Total Scaffold Genes61 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)25 (40.98%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (25.00%)
Associated Families4

Taxonomy
All Organisms → cellular organisms → Eukaryota → Opisthokonta → Fungi → Dikarya(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?
F026456Metagenome197Y
F079413Metagenome / Metatranscriptome115Y
F081952Metagenome / Metatranscriptome113Y
F086388Metagenome / Metatranscriptome110Y

Sequences

Protein IDFamilyRBSSequence
Ga0307515_1000123828F079413N/AVGSETELWIKVKKLQFDDVYLSRVVDDRKSWFLRMEVVDLIYHQFFFTANSVGRQATILQYFQPLAPQTLALAAAAIHSVLSEYAIGK
Ga0307515_100012383F026456N/AMDGVMXALPKKKTQWKEDLFFAVRLAXQKLSKFYAEVTPTTGILHISAHILDPFRKLQLFRKWDKGMDINPEDETSYTI
Ga0307515_1000123838F081952AGGMVNALKKKFSPHPAGTYGKSTKISQHRCHQANKGNRGLVTQRDRALGALRSLRSKKKLVAEKRHEMHFLSNKEKEQ
Ga0307515_1000123854F086388N/AMETGDETAEHLEMAAVKEGNCTLAADDINWXISQIDCPCQWQFVIIYPVILHCHYYIIASQIGHRVEPYELSSVEIFPSTYSVKKDSGKLLQMRDEI
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