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 Ga0181403_1004946

Scaffold Ga0181403_1004946


Overview

Basic Information
Taxon OID3300017710 Open in IMG/M
Scaffold IDGa0181403_1004946 Open in IMG/M
Source Dataset NameMarine viral communities from the oligotrophic San Pedro Time Series (SPOT) site, San Pedro Channel, CA, USA ? 26 SPOT_SRF_2011-09-28
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)2920
Total Scaffold Genes10 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)4 (40.00%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (50.00%)
Associated Families4

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

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Marine → Strait → Unclassified → Seawater → Marine Viral Communities From The Oligotrophic San Pedro Time Series (Spot) Site, San Pedro Channel, Ca, Usa

Source Dataset Sampling Location
Location NameUSA: California
CoordinatesLat. (o)33.55Long. (o)-118.4Alt. (m)Depth (m)0
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F030052Metagenome186Y
F048927Metagenome147Y
F058131Metagenome135N
F059877Metagenome133N

Sequences

Protein IDFamilyRBSSequence
Ga0181403_10049463F059877GGAMNMKLNNFIASAVVATLALTSCEKTDYDVQFDRDTHVKIMSDNSVSTYAVSSCTGKDTSFTVDFGVAMCINVANLPGIDDVRYDDYEFYAMLDGRKVKGFQNLKDQISDRAQGLIDGNINVQLSGHTDLAVYLLHENMYKAQFFVENGDGQIFELQLKEVY
Ga0181403_10049465F058131N/AMKITIGQIGKTYEVSDDNTVKVTHNHDAIVSVCGEYFKNKYTNEWLSELEVQDYYDAQKLDEEYENKYY
Ga0181403_10049466F030052GGAMKNKYIEKLIELEDLLKVHDWYYAMSDDNYWYKKGRRQYERIWELMDELNKNNYSTMAENLYDKYKK
Ga0181403_10049469F048927N/AMSNFKIDSSTNIIKLNNQTYIPFQLHQLPKYYNEIPLSEQFNLKGYCYINYNSLKSHNFDIHTLNKDLDYTQKR
 ⦗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.