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 Ga0105245_10000004

Scaffold Ga0105245_10000004


Overview

Basic Information
Taxon OID3300009098 Open in IMG/M
Scaffold IDGa0105245_10000004 Open in IMG/M
Source Dataset NameMiscanthus rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS M5-4 metaG
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)470684
Total Scaffold Genes402 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)219 (54.48%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (50.00%)
Associated Families2

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

Ecosystem & Geography

Source Dataset Ecosystem
Host-Associated → Plants → Rhizosphere → Unclassified → Unclassified → Miscanthus Rhizosphere → Corn, Switchgrass And Miscanthus Rhizosphere Microbial Communities From Kellogg Biological Station, Michigan, Usa

Source Dataset Sampling Location
Location NameMichigan, USA
CoordinatesLat. (o)42.3948Long. (o)-85.3738Alt. (m)Depth (m)
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F037774Metagenome167Y
F105410Metagenome / Metatranscriptome100N

Sequences

Protein IDFamilyRBSSequence
Ga0105245_10000004183F037774GGAVRIAPPPRNEVNFATVDSPSLQFLPRQQEAQIWKLDEDPIVIPGDHLNTYLGPVEAPQFARYETLDLTIGKYSTPGSDGFATVEIFRFPDFVKAFGAYSKQKNGNLRFIDIPNESFAKAHSVHVWRGPFYVRITGAGQGDAVLKLATFVADKMPPAPSKPAVFAFLPDKQRVIGSERYSADSAFGQPFLANSFQATFNIDNDLIDGIVIPAANKQAAGNILDQYKGLYLHNGKLLDPIPNLGEDNFTAEDRYLGRVVAFRIDRFVIAFNGYHDRQHLLDLATAADQRILGTIRKQLVTADKEAENADNGNTSTVPAWMQHKR*
Ga0105245_10000004316F105410N/AMAVETYDWIDTTNLSALVANFARVHMLLSMFDGDPQKWIEFLEWNGTEEERRRDLPFAQDLKHRIAEDPEYLERLRHLVRDFSTLV*
 ⦗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.