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 Ga0208091_1004427

Scaffold Ga0208091_1004427


Overview

Basic Information
Taxon OID3300020506 Open in IMG/M
Scaffold IDGa0208091_1004427 Open in IMG/M
Source Dataset NameFreshwater microbial communities from Lake Mendota, WI - 26OCT2012 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)1942
Total Scaffold Genes7 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)5 (71.43%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Associated Families3

Taxonomy
All Organisms → cellular organisms → Archaea → Euryarchaeota → unclassified Euryarchaeota → Euryarchaeota archaeon(Source: UniRef50)

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?
F000868Metagenome / Metatranscriptome853Y
F018162Metagenome / Metatranscriptome236Y
F021288Metagenome / Metatranscriptome219Y

Sequences

Protein IDFamilyRBSSequence
Ga0208091_10044274F021288AGGAGMLGYTQQNLADMTYGVYQADLLVDADENPAIHNYLVMAHDFLQGLWAEGYFDHA
Ga0208091_10044275F000868AGGMSFLENENQMVIDATLSEIGEMLVEDWINSNLDEGELYSDWRIADMSDSNYLKGRFNQYHDLKPEDQYYLEYDEEK
Ga0208091_10044277F018162N/AKARPRWNDSSYATRIATSHLVGNDWSSETGWGLYVNEIGDNEHKIAIVDFKQQTFSLHEEAPYIDQDNKIRGMKNNAIFTMDLSSFCEKYALEEILVV
 ⦗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.