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_10038992

Scaffold Ga0307515_10038992


Overview

Basic Information
Taxon OID3300028794 Open in IMG/M
Scaffold IDGa0307515_10038992 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)7574
Total Scaffold Genes17 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)11 (64.71%)
Novel Protein Genes10 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)6 (60.00%)
Associated Families3

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?
F000814Metagenome880Y
F016902Metagenome243Y
F027698Metagenome193Y

Sequences

Protein IDFamilyRBSSequence
Ga0307515_1003899210F027698GAGGVCRLKISASAVELGFEDDFWDGRDSVFINGLSVMSILFAQKMSASDVELGFLDNFWVPGTSFSSTVSEQAVVYVH
Ga0307515_1003899213F000814N/AVSAVELGFEDEFLDTRDSFFVNGLSVRSSLFAQKMLASTIKLGFLDDFLGPGVLLFINGL
Ga0307515_1003899216F000814AGTAGVKISASAVELVFEDDFWDSRDSVFIKGLSVRSSLFPQKMLASVVQLGFLDDFLGPRVLVFVNGF
Ga0307515_1003899217F016902N/AVFINGLSVRSSLFAQKMLASTIKLGFLDDFLGPGVLLFINGF
Ga0307515_100389924F027698N/ALKISASTVELRFEDEFWDTRDSFFVNGLSARSSLFGQKMSVSDVELGFLDDFWVRGTSFSSMVSEGAVVCVD
Ga0307515_100389925F027698AGTAGLKISASTVDLPFEDEFWDTRESFFVNCLSVRSSLLGQKMSASDVELGFLDDFWVSGTSFSSTVSELAVVYVH
Ga0307515_100389926F027698N/ALKISASTVELRFEDEFWDTKESFFVNGLSVRSSLLGQKMSASDVELGFLDVFWVSGTSFSSTVSELAVVYVH
Ga0307515_100389927F027698GAGGVCRLKISASAVELGFEDDFWDRRDSVFINGLSVMGILFAQKMSASAVEVGFLDDFWVPGTSFSSTVSEPALVYVH
Ga0307515_100389928F027698AGTAGLKISASAIELGFEDDFWDDRDSFFVNGLSVRSSLFAQKMSASDVELGFLDDFWFLRTSFSSTVYEAAVVYVH
Ga0307515_100389929F027698AGTAGLKISASTVELRFEDEFWDTRDSFFVNGLSVRSSLFGQKMSASDVELGFLDDFWVRGTSFSSMVSEAAVVGVD
 ⦗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.