NMPFamsDB

NMPFamsDB

NMPFamsDB

A database of Novel Metagenome Protein Families

A database of Novel Metagenome Protein Clusters

A database of Novel Metagenome Protein Clusters
x
This website uses cookies to improve user experience. By using NMPFamDB you consent to all cookies in accordance with our privacy policy. OK
Scaffold Ga0307507_10000413

Scaffold Ga0307507_10000413


Overview

Basic Information
Taxon OID3300033179 Open in IMG/M
Scaffold IDGa0307507_10000413 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)89122
Total Scaffold Genes62 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)31 (50.00%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (40.00%)
Associated Families5

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
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F002555Metagenome548Y
F002793Metagenome529Y
F019458Metagenome229Y
F035578Metagenome171Y
F056201Metagenome137Y

Sequences

Protein IDFamilyRBSSequence
Ga0307507_100004131F056201N/AMAPSGSIELRRPNTLARKIPYRRMPRGIIVVELSREYLSMVYRGKEIN
Ga0307507_1000041311F002793N/AMDIIPLVEDLKILEIFKDKDKEEGDSIMDTLSTVL
Ga0307507_100004132F035578GAGMVARVGDMAEGTININYKVIVEVLVEVYLKIINRRNAIFVRS
Ga0307507_100004133F019458N/AMLYSVIKLDIFNKLKESSVFSFNNRYLVNVFYGTILDTRATGVSIVGEP
Ga0307507_1000041355F002555AGTAGMLGIFKDKDKKEGDGVMDALSTILQLLREELVEAS

 ⦗Top⦘



© Pavlopoulos Lab, Bioinformatics & Integrative Biology | B.S.R.C. "Alexander Fleming" | Privacy Notice
Make sure JavaScript is enabled in your browser settings to achieve functionality.