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 Ga0208221_1000004

Scaffold Ga0208221_1000004


Overview

Basic Information
Taxon OID3300020574 Open in IMG/M
Scaffold IDGa0208221_1000004 Open in IMG/M
Source Dataset NameFreshwater microbial communities from Lake Mendota, WI - 26JUN2009 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)68049
Total Scaffold Genes102 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)58 (56.86%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (80.00%)
Associated Families5

Taxonomy
All Organisms → Viruses(Source: IMG/M)

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?
F008943Metagenome / Metatranscriptome325Y
F010764Metagenome / Metatranscriptome299Y
F014121Metagenome / Metatranscriptome265Y
F018913Metagenome / Metatranscriptome232Y
F089902Metagenome / Metatranscriptome108Y

Sequences

Protein IDFamilyRBSSequence
Ga0208221_100000425F010764N/AMIKIQKTYHLALTEDQAKELYQLLRTERDSGCLTPDKELVLVYHELKNLFDTGIR
Ga0208221_100000427F008943GGAMKNFNEITWAVLSFFFIIIVAGAIITYDAQQQRVLFQQTYNKNLECRQALKDQTVGRVNEICGDVPAIGAFVK
Ga0208221_100000429F014121AGGAGMTNTAYQIWETFKAELIVEPTDDMKEALASSIRVISSIIHRDGVLANEPWLTHTAQELNEIADDMEAL
Ga0208221_100000431F018913GGTGGMTNQQRAEELLKVICKSEAHNTAWMLQEVLQQLRKQLSGTNKIDFTDELDVMFNAGWDECLKEIDAICDELLEL
Ga0208221_100000443F089902AGGMTDRAQKLMDSVWQERNTWADSEQKLVAAIIRKTMEYVKTMTAQKLNNLTVLDRSDMMALSKEVENLP
 ⦗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.