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 Ga0307497_10007524

Scaffold Ga0307497_10007524


Overview

Basic Information
Taxon OID3300031226 Open in IMG/M
Scaffold IDGa0307497_10007524 Open in IMG/M
Source Dataset NameSoil microbial communities from Populus trichocarpa stands in riparian zone in the Pacific Northwest, United States - 10_S
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)2986
Total Scaffold Genes7 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)1 (14.29%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (33.33%)
Associated Families3

Taxonomy
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria(Source: IMG/M)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Unclassified → Unclassified → Soil → 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)46.0356Long. (o)-122.86Alt. (m)Depth (m)
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F036461Metagenome / Metatranscriptome170Y
F078687Metagenome / Metatranscriptome116N
F099903Metagenome / Metatranscriptome103N

Sequences

Protein IDFamilyRBSSequence
Ga0307497_100075244F099903GAGGMRDPMYSPPFPAATAAFEVPCVMHALELLRELRTEWVGWIENGLDGTFVVVLAPETIGELNQLMSRVGTWITTQDFLAIRFHLDGRAHIMQRGGFVGPADRSHALDT
Ga0307497_100075245F078687N/AMPPLDEFARRRLGRALVSLEGAIARFEAHGNGDVEPNVNRLKRLADDIRAVLRLAHDTAPRA
Ga0307497_100075246F036461N/AMIGGNSLNEIVLFEVPAQSGATQLLAELSTSRLAWMERGDEASVIGILLNPDEDDLARLLREVEAWVGKRGLLAVRFEVDGRTYVLHNPVLAEQAHTAA
 ⦗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.