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 Ga0181390_1005592

Scaffold Ga0181390_1005592


Overview

Basic Information
Taxon OID3300017719 Open in IMG/M
Scaffold IDGa0181390_1005592 Open in IMG/M
Source Dataset NameMarine viral communities from the oligotrophic San Pedro Time Series (SPOT) site, San Pedro Channel, CA, USA ? 13 SPOT_SRF_2010-07-21
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)4724
Total Scaffold Genes16 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)4 (25.00%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)0 (0.00%)
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)5
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F003920Metagenome / Metatranscriptome462Y
F004488Metagenome / Metatranscriptome436Y
F018079Metagenome / Metatranscriptome237N
F018084Metagenome237Y

Sequences

Protein IDFamilyRBSSequence
Ga0181390_10055921F004488N/AGWFETWKQNLFDAYDPPKPTVYKLGQKKYVKVKRLRTTSKAKGPYLK
Ga0181390_100559214F018084N/AMVKTAVIIICIFVVPGVVMGVISSYRAGQKPHRELYLILKKFAQRK
Ga0181390_100559216F003920N/ALMLLRVLLIYCVLITVAVAFHENTFAVFELKEDLQIRIMNLWELFQQLEYVDPRQRAVVYEEIQHIREEIQRIIDLLIQHDHSQHP
Ga0181390_10055923F018079N/AMYTLEKRKMIYIMSRKPVWYHTHCLTPNNKLPLWHDPTWVIGHCELCAMSVMNQDWWNGCSYNQSQRKFYDDIEQALKLWK
 ⦗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.