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 Ga0207909_1015589

Scaffold Ga0207909_1015589


Overview

Basic Information
Taxon OID3300020572 Open in IMG/M
Scaffold IDGa0207909_1015589 Open in IMG/M
Source Dataset NameFreshwater microbial communities from Lake Mendota, WI - 05MAY2010 deep hole epilimnion (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1430
Total Scaffold Genes5 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)3 (60.00%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Associated Families3

Taxonomy
Not Available(Source: )

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?
F000311Metagenome / Metatranscriptome1326Y
F001043Metagenome / Metatranscriptome794Y
F003422Metagenome / Metatranscriptome487Y

Sequences

Protein IDFamilyRBSSequence
Ga0207909_10155892F001043AGGAGMADTYQDGFTDGARWAREEITEKLREIDIMDIDSWLLDKLADMIEGGHL
Ga0207909_10155893F000311GGAGMYFELTAPSQVAFARAIWDAEIIGLDPEEMGSLTFNIGTGSIEKVTRLREKHNLKLIHESDSEQTGYRRN
Ga0207909_10155894F003422N/AMTNELVSSKYTFVCDPNECDSLIELTSSDGFGFPSGVTELTCPCGRKTTLVSVEHATIPYTDTPLPTKEEQMEEATIGSDATHSPAVEYNPNQLVTYKIIHGYSDPEYATTKVASLEWDLHNARQTQKTNGSLTNKISLVKDIITEAYADSDDQETLRSIAEALDIELTRTVEWSATIEVSGTIELDLLADSDTDIESEIYDNLYVESQHGNIQVDDTEVTNVREN
 ⦗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.