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 Ga0335048_0119694

Scaffold Ga0335048_0119694


Overview

Basic Information
Taxon OID3300034356 Open in IMG/M
Scaffold IDGa0335048_0119694 Open in IMG/M
Source Dataset NameFreshwater microbial communities from Lake Mendota, Madison, Wisconsin, United States - TYMEFLIES-ME17Jun2014-rr0152
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1552
Total Scaffold Genes4 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)1 (25.00%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (50.00%)
Associated Families2

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?
F003541Metagenome / Metatranscriptome480Y
F023791Metagenome / Metatranscriptome208Y

Sequences

Protein IDFamilyRBSSequence
Ga0335048_0119694_1070_1552F023791N/AVGQGSERIIRTTFTMQVNAYLLPETFNETPVVKKERSKKRVVFGIETDLTGNLFNQPSLYNEYAQIIDFVAIRSSQMAIFVNSTTVKLINVKKPLLPSELVGVFDTDNWFRVYINGDFVSPTYYTYSYNGSVNEIVFVFSLTYPLDANDEIAITGKFQEL
Ga0335048_0119694_2_316F003541AGCAGMARLIPRKQIEEQQNISGSLSIQQNVEIGQDAIISGSLFVSKSFFFGNDLNDKSEITGSVFLTGSLTIDGVLRTGAPNTILSVTSSNTILAVDTQRYAGILAKDF
 ⦗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.