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_10002824

Scaffold Ga0307507_10002824


Overview

Basic Information
Taxon OID3300033179 Open in IMG/M
Scaffold IDGa0307507_10002824 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)35237
Total Scaffold Genes17 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)9 (52.94%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (75.00%)
Associated Families4

Taxonomy
Not Available(Source: )

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?
F002555Metagenome548Y
F013992Metagenome266Y
F035639Metagenome171Y
F044237Metagenome154Y

Sequences

Protein IDFamilyRBSSequence
Ga0307507_100028241F013992N/AMVNIYNYSGLVVAVANNLMGLIFSRVGYRDLGICFGNKLSP
Ga0307507_100028243F002555AGTAGMLGIFKDKDKEEGDGVMDALSIMLELLREELEEVS
Ga0307507_100028244F044237GAGMYKLNLLAKIKIYPIQYVIMLELAYRNVKLLVYKVDMYRGQKEDK
Ga0307507_100028246F035639GAGGMVNRLLDNNRILKECINGIGVVKVKLPLIKQFLGERLKPKGFLI
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