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 Ga0115572_10146044

Scaffold Ga0115572_10146044


Overview

Basic Information
Taxon OID3300009507 Open in IMG/M
Scaffold IDGa0115572_10146044 Open in IMG/M
Source Dataset NamePelagic marine microbial communities from North Sea - COGITO_mtgs_120607
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1390
Total Scaffold Genes4 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)2 (50.00%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Associated Families3

Taxonomy
All Organisms → Viruses → environmental samples → uncultured marine virus(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Marine → Pelagic → Unclassified → Pelagic Marine → Pelagic Marine Microbial Communities From North Sea

Source Dataset Sampling Location
Location NameGermany:Helgoland, sampling site Kabeltonne, North Sea
CoordinatesLat. (o)54.1883Long. (o)7.9Alt. (m)Depth (m)1
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F028035Metagenome / Metatranscriptome193N
F046634Metagenome151Y
F080521Metagenome / Metatranscriptome115N

Sequences

Protein IDFamilyRBSSequence
Ga0115572_101460441F080521N/AVCVYQPIGDKMNINTVWTNTIDSMSSIKDKVIDKYNSTNMNPFPKNVNVTVKFDLVGTYSDLLKKFDSMSDKDMQRVVDILEKKSDIIQKIIMKQLDK*
Ga0115572_101460442F028035AGGAGGMIPYDVLQQVEGDTEKHSNYQLNQYEFPFPENSVLIERDKEMNRILNKPIIITTSNNNNCQQ*
Ga0115572_101460443F046634AGGAGMTTQQLFVPYAESKSAEERIAYVKANPDKYMPKGQYDLIKGLNAKIDALDSKMNEILAKK
 ⦗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.