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 Ga0208487_1001655

Scaffold Ga0208487_1001655


Overview

Basic Information
Taxon OID3300020531 Open in IMG/M
Scaffold IDGa0208487_1001655 Open in IMG/M
Source Dataset NameFreshwater microbial communities from Lake Mendota, WI - 21SEP2012 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)4149
Total Scaffold Genes8 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)7 (87.50%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (100.00%)
Associated Families2

Taxonomy
All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → environmental samples → uncultured Caudovirales phage(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?
F004477Metagenome / Metatranscriptome436Y
F022885Metagenome / Metatranscriptome212Y

Sequences

Protein IDFamilyRBSSequence
Ga0208487_10016551F004477AGAAGMSLMSFFSSPPITSFEQLELEKGKIQLTIMKMAAAVLGSIMMAVVAIFLVGLFMPNHVIDNNEIFKIIGPAFSTIVGAFVGAFATMMGMKVTELDTNVKTQELGKTDHKELAEAHVINAQAETIETENEIKMMAAIDKYKDSDEDFGPF
Ga0208487_10016557F022885AGGAMTDLVDNEFGIEYEKISIKKLRIFRVGKQWLVEYQRYVRLWAPWDHFWWYNDGQYVEYYDALARVNDLKASGYANVPRFQKVKTFDVSSE
 ⦗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.