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 Ga0207428_10000024

Scaffold Ga0207428_10000024


Overview

Basic Information
Taxon OID3300027907 Open in IMG/M
Scaffold IDGa0207428_10000024 Open in IMG/M
Source Dataset NamePopulus root and rhizosphere microbial communities from Tennessee, USA - Rhizosphere MetaG P. TD hybrid SRZTD1 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)265587
Total Scaffold Genes252 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)140 (55.56%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (33.33%)
Associated Families3

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

Ecosystem & Geography

Source Dataset Ecosystem
Host-Associated → Plants → Rhizosphere → Unclassified → Unclassified → Populus Rhizosphere → Populus Root And Rhizosphere Microbial Communities From Tennessee, Usa

Source Dataset Sampling Location
Location NameUSA: Tennessee
CoordinatesLat. (o)35.8444Long. (o)-83.9599Alt. (m)Depth (m)0
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F019336Metagenome / Metatranscriptome230Y
F019854Metagenome227Y
F059136Metagenome134Y

Sequences

Protein IDFamilyRBSSequence
Ga0207428_10000024121F019854AGGMRCEIRREGVGSGYEMIVTAPDGSQRMERFDETNDLIKRTLDLQRDLLETGWRQPK
Ga0207428_10000024148F059136N/AMMTRRAQLAVVLCVLVAAAAVAADRQWQSAIWRDSKIERPKVMFGVQPRDPNSNLPQSAVAREIRTFVIETSTHLLELRQDATVDTPHLDVLPGQTVRIAIENKTVYVKDGLGKEHKLSLRRQTPLKR
Ga0207428_10000024227F019336N/AMEHMTFDFMLGFLLAVGLMVALWLPLFFFDYKAEKKRGAEPIGSGENPPTPPLDKVHLS
 ⦗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.