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_10001719

Scaffold Ga0307507_10001719


Overview

Basic Information
Taxon OID3300033179 Open in IMG/M
Scaffold IDGa0307507_10001719 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)48295
Total Scaffold Genes13 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)4 (30.77%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (40.00%)
Associated Families5

Taxonomy
All Organisms → cellular organisms → Eukaryota(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
F004663Metagenome428Y
F006298Metagenome376Y
F017572Metagenome240Y
F035578Metagenome171Y

Sequences

Protein IDFamilyRBSSequence
Ga0307507_1000171911F017572N/AMLELAHGDIKPLAYKADTYRGQEEDKWQVLKIISYKDVDNKT
Ga0307507_100017193F004663GGAMGVLEESRLGSINKEELLKNKLPKGDLRGVIAKLLGVVSLIGGKLILLLPSLDKPC
Ga0307507_100017194F002793N/AMDIIPLVDDLEMLGIFKDENKEKGDGITDALSTML
Ga0307507_100017195F006298N/AMKRRLVIKDSNGLYTIYLTILSKVLVRRVVLNFYIYKELFGLINLTLKIFFAFILNQEALEVGYSSLLVFNILCALAKLIICLLLSIKGVPS
Ga0307507_100017196F035578GGAVARVGDIVEGIINVNYKAIIEVLVEVYLKTINRRNAIFIRSQIIG
 ⦗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.