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 Ga0065712_10187223

Scaffold Ga0065712_10187223


Overview

Basic Information
Taxon OID3300005290 Open in IMG/M
Scaffold IDGa0065712_10187223 Open in IMG/M
Source Dataset NameMiscanthus rhizosphere microbial communities from Kellogg Biological Station, MSU, sample Rhizosphere Soil Replicate 1: eDNA_1
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1158
Total Scaffold Genes3 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)1 (33.33%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (50.00%)
Associated Families2

Taxonomy
All Organisms → cellular organisms → Bacteria(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Host-Associated → Plants → Rhizoplane → Unclassified → Unclassified → Miscanthus Rhizosphere → Miscanthus Rhizosphere Microbial Communities From Kellogg Biological Station, Michigan State University, Usa

Source Dataset Sampling Location
Location NameKellogg Biological Station, Michigan State University
CoordinatesLat. (o)42.406189Long. (o)-85.40016Alt. (m)Depth (m)
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000283Metagenome / Metatranscriptome1379Y
F000336Metagenome / Metatranscriptome1274Y

Sequences

Protein IDFamilyRBSSequence
Ga0065712_101872232F000283AGGAMKSTLVSRNILLCAAAIFVASCGTATFTKSGSDATIETLRSFHLAFIDQFAVPGKKFNATAFNAKVNEGNAKFQQAIADEKFTARRPVLVDLKAQFDADAAHLKSKASKGKVTPALASEMKKDVNKIYDHALGR*
Ga0065712_101872233F000336N/AMPSAGKKKHKKPSRKKSELDSALDQVGEESSAAAIKEFQDLLREAKGDTSELVRQNAEELERRLVLLKNHEIDKDDFDYFVENQKRDLRAYVDGQPAQAQEHAEKVTIQVL
 ⦗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.