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_10002402

Scaffold Ga0307507_10002402


Overview

Basic Information
Taxon OID3300033179 Open in IMG/M
Scaffold IDGa0307507_10002402 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)39535
Total Scaffold Genes20 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)5 (25.00%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (20.00%)
Associated Families5

Taxonomy
All Organisms → cellular organisms → Eukaryota → Opisthokonta → Fungi → Dikarya → Ascomycota → saccharomyceta → Pezizomycotina → leotiomyceta → dothideomyceta → Dothideomycetes → Pleosporomycetidae(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
F003725Metagenome471Y
F061416Metagenome131Y
F081988Metagenome113Y

Sequences

Protein IDFamilyRBSSequence
Ga0307507_100024021F081988N/AVLIKNIKDKLGVVFEAYSKTAKDKADKVDKTKLLELLAKEVIRIGLPAIPTL
Ga0307507_100024022F002793N/AMDIIPLVNNLEMLGIFKDKDKEEGDSIIDSLSIML
Ga0307507_100024024F003725N/AMETLINLYADLKEIAKLVQEQIKKYYNTKRSKGPDLKEGDKVWLLYKNFKS
Ga0307507_100024025F002555N/AMLEIFKNKDKKEGDSITDSLSTILQLLGEELVAAS
Ga0307507_100024029F061416AGGMHFKVIQEGVKLVTPIDQVAYAGLFLTGRALKWFKPYLTKI
 ⦗Top⦘



Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
© 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.