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_10002341

Scaffold Ga0307507_10002341


Overview

Basic Information
Taxon OID3300033179 Open in IMG/M
Scaffold IDGa0307507_10002341 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)40197
Total Scaffold Genes16 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)12 (75.00%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (75.00%)
Associated Families4

Taxonomy
All Organisms → cellular organisms → Eukaryota → Opisthokonta → Fungi → Dikarya → Ascomycota → saccharomyceta → Pezizomycotina → leotiomyceta → dothideomyceta → Dothideomycetes → Dothideomycetes incertae sedis → Trypetheliales → Trypetheliaceae → Viridothelium → Viridothelium virens(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?
F000630Metagenome971Y
F009949Metagenome310Y
F020829Metagenome221Y
F056213Metagenome137Y

Sequences

Protein IDFamilyRBSSequence
Ga0307507_1000234110F020829AGGAVPLVSSKLITNIIFSIYRTPLTLRLYILIIYTGPLYIWIIITIISRLTTCYNYKDRLIALLIIKHTRIAAFGLYRS
Ga0307507_1000234111F000630GAGMGVKGIEANLGKRNLSSSIVNAIGGKYLRAPRRPIKGRKYNSNTLKNRNNRTKRLALLGRCPSR
Ga0307507_1000234114F056213N/AVDFGIRRSISLYRLLITFAQALRAPGKSIPIREVFSLGLRDLIRLLTSAELF
Ga0307507_1000234115F009949AGGMGGKYLRALRRPNKGRKYNGNTLKDRNNRTKRLALLGGYSSR

 ⦗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.