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 Ga0181400_1018236

Scaffold Ga0181400_1018236


Overview

Basic Information
Taxon OID3300017752 Open in IMG/M
Scaffold IDGa0181400_1018236 Open in IMG/M
Source Dataset NameMarine viral communities from the oligotrophic San Pedro Time Series (SPOT) site, San Pedro Channel, CA, USA ? 23 SPOT_SRF_2011-06-22
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)2343
Total Scaffold Genes8 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)8 (100.00%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (100.00%)
Associated Families3

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)5
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F001655Metagenome / Metatranscriptome656Y
F002858Metagenome / Metatranscriptome525Y
F008883Metagenome / Metatranscriptome326Y

Sequences

Protein IDFamilyRBSSequence
Ga0181400_10182361F008883AGGAGMTLGRYTIWYNHEDHVWDIYDSRKGFKYPEYTINNYSGIMGKLRDRFGFLDTDKNHRRFWRVMRWWSKLRHGLAKSRHGRR
Ga0181400_10182366F002858AGGAGMFIDEKSIYVVDGGDYSVYCLGYTQARTVTNDIMRRDPWGGIPFVLRKDLEISLDDRGNVVMTKSTLDKILFLASDELPEGEQ
Ga0181400_10182367F001655GGAGGVKQPENGHTKHFGNEGPIGNDAEIIVYYEERGPAEPVLRIPFWYCKDELGMHEHFEASVQRTAKALAESYTYWPDGYVHVQTIINQEYVNIL
 ⦗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.