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 Ga0334980_0073141

Scaffold Ga0334980_0073141


Overview

Basic Information
Taxon OID3300033816 Open in IMG/M
Scaffold IDGa0334980_0073141 Open in IMG/M
Source Dataset NameFreshwater microbial communities from Lake Mendota, Madison, Wisconsin, United States - TYMEFLIES-ME16Sep2004-rr0005
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1437
Total Scaffold Genes5 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)4 (80.00%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (100.00%)
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?
F004978Metagenome / Metatranscriptome416Y
F006698Metagenome / Metatranscriptome366Y
F043926Metagenome155Y

Sequences

Protein IDFamilyRBSSequence
Ga0334980_0073141_190_444F004978AGGAGMITADTIKVLASYSPQYLTKAAQLAGYKGANFTACKFLGITNGGQFCYTAVFPVKGGTDSTKVFLSYDHDEDRVIADIQLTELA
Ga0334980_0073141_481_870F006698AGGAMTRHYEELAVYEREGYEIIVDKTWEDISVADCFDDTQFDIAEINHNIEHGHLDWFVLRVRVLVEGLELDSEHLGGCLYEDARQVLTDGTAEDLITQSLDNAKQQVYRLYRKFQDLSWELDAAGVDRSTV
Ga0334980_0073141_867_1067F043926GGAGMIKWECQMFYKDKLYSGHYWGDELSLARARRKVAELQRMHPPMRFVLTDWQKGSIIDLGKHTKELV
 ⦗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.