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 Ga0335005_0177117

Scaffold Ga0335005_0177117


Overview

Basic Information
Taxon OID3300034022 Open in IMG/M
Scaffold IDGa0335005_0177117 Open in IMG/M
Source Dataset NameFreshwater microbial communities from Lake Mendota, Madison, Wisconsin, United States - TYMEFLIES-ME20Apr2018-rr0058
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1337
Total Scaffold Genes4 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)2 (50.00%)
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 → Lake → Unclassified → Freshwater → Freshwater Microbial Communities From Lake Mendota, Crystal Bog Lake, And Trout Bog Lake In Wisconsin, United States

Source Dataset Sampling Location
Location NameUSA: Wisconsin
CoordinatesLat. (o)43.0995Long. (o)-89.4045Alt. (m)Depth (m)
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F060861Metagenome / Metatranscriptome132N
F071234Metagenome122N
F090366Metagenome / Metatranscriptome108N

Sequences

Protein IDFamilyRBSSequence
Ga0335005_0177117_1008_1337F090366N/AMTFDYHKAMAEGHGYNNYVASLLRSYGVPNVDVPEFSIATTHDKIADKTKNEKDIIVDQLVLEVKSRAISFDGADDFPHALVLVDTVYGFDQKIIKPFAYVYLSQISKGV
Ga0335005_0177117_222_848F060861AGGAMIDLTQYEDAASLNRWFIQSFPMGRINLQLVEINLDKGIVVFKGDVYRDSTDTNPAVSNYAKGERDDYPAHMRKWYLEDTATSCIARCLTLLKGSNKTAPKESMVRATNWSVEPKAALLDDLQSEDRRAAEVFAEAVRNAPDVVMREVGTLPEQVCEDGSRMRFKEGISKTTGKPFKGYVCECGKGCPAKWASQSSNGHWYFKESVNG
Ga0335005_0177117_841_1011F071234AGGAGMGDMEMIDKHGVKAKFTDEGVELEIVNWTDRCVSCNDPRLLREGNRKVCAFCGCRQ
 ⦗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.