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 Ga0208223_1008137

Scaffold Ga0208223_1008137


Overview

Basic Information
Taxon OID3300020519 Open in IMG/M
Scaffold IDGa0208223_1008137 Open in IMG/M
Source Dataset NameFreshwater microbial communities from Lake Mendota, WI - 07OCT2009 deep hole epilimnion ns (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1754
Total Scaffold Genes6 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)5 (83.33%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (100.00%)
Associated Families4

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

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Freshwater → Lentic → Epilimnion → Freshwater → Freshwater Microbial Communities From Lake Mendota And Trout Bog Lake, Wisconsin, Usa

Source Dataset Sampling Location
Location NameLake Mendota, Madison, Wisconsin, USA
CoordinatesLat. (o)43.098333Long. (o)-89.405278Alt. (m)Depth (m)
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F001280Metagenome / Metatranscriptome732Y
F014017Metagenome / Metatranscriptome266Y
F028166Metagenome / Metatranscriptome192Y
F088905Metagenome / Metatranscriptome109Y

Sequences

Protein IDFamilyRBSSequence
Ga0208223_10081371F001280GAGGMCIECGCEAFGSETGIVPVTITDVSTDGEAGLTLSMTSTPEQTRQFI
Ga0208223_10081372F088905GGAGGMSDNTKDIDTTPVVEVKEEVKPKAEAKAAPADADATVDYWANAWANRGV
Ga0208223_10081373F028166AGGAGMTNGNDLTGFNELQGGDSNNLDLNPTGQAPAAAFPATDKSTQDGAGLGNGGK
Ga0208223_10081375F014017AGGMDKIEDYLDERHRKQIADEIRYLELPPEWRPHEVIRYIVRIIEKSNG
 ⦗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.