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 Ga0066856_10008408

Scaffold Ga0066856_10008408


Overview

Basic Information
Taxon OID3300005404 Open in IMG/M
Scaffold IDGa0066856_10008408 Open in IMG/M
Source Dataset NameMarine microbial and viral communities from oxygen minimum zone, Eastern Pacific Ocean - ETNP201406SV205
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)4334
Total Scaffold Genes12 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)12 (100.00%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (100.00%)
Associated Families4

Taxonomy
All Organisms → Viruses → Predicted Viral(Source: DeepVirFinder)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Marine → Oceanic → Unclassified → Marine → Microbial And Viral Regulation Of Community Carbon Cycling Across Diverse Low-Oxygen Zones

Source Dataset Sampling Location
Location NamePacific Ocean: Eastern Tropical North Pacific
CoordinatesLat. (o)Long. (o)Alt. (m)Depth (m)
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F004493Metagenome436Y
F052260Metagenome / Metatranscriptome143N
F053978Metagenome140Y
F061779Metagenome131Y

Sequences

Protein IDFamilyRBSSequence
Ga0066856_1000840810F061779AGGAGMLPDEMEAEKNRKMILAQADEIEILKRNVNELQAQLNAAHKRIASQSEDWGGMRDKLDSALIHNKRLIEQNAEAMVIIGHKQQELDAMEESECFCGLADEPVMATEDI*
Ga0066856_1000840811F053978GGAGGMHINETTKQMIREIVVELFKEVASKQTFGVSDEVIQLDEHLHDWVGAKIDKYKVKVYGARLEERY*
Ga0066856_100084084F052260AGGAGMFVILATKPLNDGTKGFRFNFFGKKGIVRQRKLKSNGIKFVKGDCMNAYHIGKTTVYTERSTNTTTGRKFRHVAG*
Ga0066856_100084086F004493GGAMQNSVTKNNALDFTDNEWGQLINANGLLIMWFIEWNNREWHNIPDTNILEFFAKKYQQSSGCEPWPMKDSKISLDGKFVSEGDDDLEPYFLINTDDGVGYIYPYAFVALPTKSGGHHVVRMD*
 ⦗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.