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_10000181

Scaffold Ga0307507_10000181


Overview

Basic Information
Taxon OID3300033179 Open in IMG/M
Scaffold IDGa0307507_10000181 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)114856
Total Scaffold Genes69 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)37 (53.62%)
Novel Protein Genes7 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (42.86%)
Associated Families7

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?
F002793Metagenome529Y
F003725Metagenome471Y
F004318Metagenome / Metatranscriptome443Y
F005943Metagenome385Y
F016500Metagenome246Y
F041034Metagenome160Y
F056213Metagenome137Y

Sequences

Protein IDFamilyRBSSequence
Ga0307507_1000018145F002793N/AMDITPLVDNLEILGIFKDEDKEKGDSVTDSLSIML
Ga0307507_1000018146F056213N/AVDFGVRRSILLYCLLITFAQALRAPSRSTPIREVFSLGLRDLIRLLTSAESFQPISFT
Ga0307507_1000018150F016500N/AVVEVIKTKEGLDPFYSIKGFLVVDYFNLFRINLNSFYSNNKPKVLYMFYSKFIFLNINL
Ga0307507_1000018161F004318N/AVLSKLRLSLVSYIVSYLGLGLVSSIELVLDLSLGSLSISFIVEYQFF
Ga0307507_1000018162F041034AGTAGMWFNIISRSLVDVSKILILVKFSGIFGLVELGRLFRYIVEVGRNFRLVDSSRFFRF
Ga0307507_1000018164F005943AGGAMSRDGGSGYKAYVFEESTRRCAIDRKGRGRKEVIYLRVADVSCTRGVRESTGLSYGGPCGGVP
Ga0307507_100001817F003725GGAGMNLYADLIETAKLVQKQIKRYYNAKRSKGPDLKEGDKVWLLYKNFKS
 ⦗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.