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 JGI25909J50240_1005712

Scaffold JGI25909J50240_1005712


Overview

Basic Information
Taxon OID3300003393 Open in IMG/M
Scaffold IDJGI25909J50240_1005712 Open in IMG/M
Source Dataset NameFreshwater lake microbial communities from Lake Michigan, USA - Sp13.BD.MM15.DD
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)3138
Total Scaffold Genes8 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)6 (75.00%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Associated Families3

Taxonomy
All Organisms → Viruses → Predicted Viral(Source: DeepVirFinder)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Freshwater → Lentic → Unclassified → Freshwater Lake → Freshwater Lake Microbial Communities From The Great Lakes, Usa, Analyzing Microbial Food Webs And Carbon Cycling

Source Dataset Sampling Location
Location NameLake Michigan, USA
CoordinatesLat. (o)43.1998Long. (o)-86.5698Alt. (m)Depth (m)
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F010236Metagenome / Metatranscriptome306Y
F023588Metagenome209N
F024783Metagenome204Y

Sequences

Protein IDFamilyRBSSequence
JGI25909J50240_10057123F010236AGAAGMKKFQDVAGRIVAVFMSSALAIVGGSALIAPELXIWKSACLAGFAACATVIQKLAQASLDGNLTMEEINDAFGAKKK*
JGI25909J50240_10057125F024783N/AMMDWGIVVAALITAVGGVMTTLMLVMRKENTQDHAKVVDALDVLSGNVTNIGTKLDGHIDWHLKGVPNGKVSXGNQSPRTKRRVKD*
JGI25909J50240_10057128F023588GAGMVLVTWADAHSGVATWTPIDSLDKDEMIVYTCGFLLATIDGGKPDHITVYQSRTMEDDIDHVLHIPCAMVRKIAICTPDQLG*
 ⦗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.