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 Ga0307515_10001427

Scaffold Ga0307515_10001427


Overview

Basic Information
Taxon OID3300028794 Open in IMG/M
Scaffold IDGa0307515_10001427 Open in IMG/M
Source Dataset NamePopulus trichocarpa ectomycorrhiza microbial communities from riparian zone in the Pacific Northwest, United States - 17_EM
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)54090
Total Scaffold Genes70 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)31 (44.29%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (80.00%)
Associated Families4

Taxonomy
Not Available(Source: )

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: Washington
CoordinatesLat. (o)46.6992Long. (o)-120.899Alt. (m)Depth (m)
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F004778Metagenome423Y
F008227Metagenome336Y
F008531Metagenome332Y
F019765Metagenome227Y

Sequences

Protein IDFamilyRBSSequence
Ga0307515_1000142732F019765GGAMDNMQAGCVFYVKVGMFTHLEQTKICLLTVKKSEIETLTVRYDVSVSVIST
Ga0307515_1000142738F004778N/AVQDRFELTDSRLLGITTDNASSNYSMTRELQSTYEASGIKWQALRNHIPGMAHVIQLALGGFMSSLGVQDHSKSWEAHERAQHFGENASIDVWKTQRLRKEGNARINKVMAMRPGFAKIIEKIRIS
Ga0307515_1000142745F008227GGALAGATSYPEILGTQHQRRHKLVHRDAADAATQYLTQDAHLKIVRKTGSRRNTKHQAVGSEYIRIDAIGGQLTV
Ga0307515_1000142746F019765GAGMLQVMDTMEASCIFYVKVGMFTHLEQRKIFLLTVKKSGIVTLTLQHDLIVSIVFM
Ga0307515_1000142763F008531AGGMSSLGVKDLTKSWEAHDRDPQFGRNESIDIKNSQRLRKEGNARINKVSATKPGSAMIFGKVRIS

 ⦗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.