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 Ga0207684_10000292

Scaffold Ga0207684_10000292


Overview

Basic Information
Taxon OID3300025910 Open in IMG/M
Scaffold IDGa0207684_10000292 Open in IMG/M
Source Dataset NameCorn, switchgrass and miscanthus rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS K5-50-1 metaG (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)71954
Total Scaffold Genes76 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)23 (30.26%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)0 (0.00%)
Associated Families3

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

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Loam → Agricultural Soil → Corn, Switchgrass And Miscanthus 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?
F002836Metagenome / Metatranscriptome527Y
F008727Metagenome / Metatranscriptome329Y
F069954Metagenome123N

Sequences

Protein IDFamilyRBSSequence
Ga0207684_1000029213F002836N/AMPGETVEIPKEVLASVETLDELYDWLTAQNTGIMAELREARQEDLEGKFKAWKPRHVSWATESK
Ga0207684_1000029258F008727N/AMKPTPQISPRQNAHRSFPLTDYSFQAAGDAKQSSSAIFPAKKLRAFRKVSSEFFGAETSRDYIAELLFFILITGIAAWSVTWMLVAVARLVRNH
Ga0207684_100002926F069954N/AMKHSIMSARRATRSGFSLAEVVIALGVIAVGVVAILAVFPTALQTGRSAQDETRAAQIAQTIFGSLVGQALSQFNNVQFLLSDNTTRSRPPIDLTTSSGTTPALTLYAENDGELTQDATTAVYAIFIYTNNSVPGFTDPASANLVTLRVAWPANAPAANQTYRDYVRIISKY
 ⦗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.