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 Ga0070671_100119294

Scaffold Ga0070671_100119294


Overview

Basic Information
Taxon OID3300005355 Open in IMG/M
Scaffold IDGa0070671_100119294 Open in IMG/M
Source Dataset NameSwitchgrass rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS S7-3 metaG
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)2219
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 → Rhizosphere → Soil → Unclassified → Switchgrass Rhizosphere → Corn, Switchgrass And Miscanthus Rhizosphere Microbial Communities From Kellogg Biological Station, Michigan, Usa

Source Dataset Sampling Location
Location NameUSA: Michigan, Kellogg Biological Station
CoordinatesLat. (o)42.3948Long. (o)-85.3738Alt. (m)Depth (m)
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F005830Metagenome / Metatranscriptome389Y
F026078Metagenome / Metatranscriptome199Y

Sequences

Protein IDFamilyRBSSequence
Ga0070671_1001192942F005830AGGAGMNKQWEPERSRVEHANDARITFTIALHGDHAWEMLLEDSKSYHSISHGWATDNPQDWEDIIAPALCRLFPDDRLRLATKASIDAPGGSCAGVALYDPPLCSPATRAEDNLSDGWRKQAIAA*
Ga0070671_1001192943F026078N/AIRERTALARQSEETPMRTFFGLVIAVVVAATIWWTFPIQAKQQFDHDSIDPLAMTGTVTNLLPEVHYDHGFIFPEQQ*

 ⦗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.