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 Ga0181404_1042732

Scaffold Ga0181404_1042732


Overview

Basic Information
Taxon OID3300017717 Open in IMG/M
Scaffold IDGa0181404_1042732 Open in IMG/M
Source Dataset NameMarine viral communities from the oligotrophic San Pedro Time Series (SPOT) site, San Pedro Channel, CA, USA ? 27 SPOT_SRF_2011-10-25
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1151
Total Scaffold Genes3 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (50.00%)
Associated Families2

Taxonomy
All Organisms → Viruses → unclassified viruses → Circular genetic element sp.(Source: UniRef50)

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?
F007722Metagenome / Metatranscriptome346Y
F013311Metagenome / Metatranscriptome272Y

Sequences

Protein IDFamilyRBSSequence
Ga0181404_10427322F013311AGGAGGLAFLGDFGKFFGLGSSEEVLGDVGQAVGTFVGGPGGGQIGRKIGETVGDATSDLAGGGASPVSTADQALEQSAVPVSQRGNVPQETSTMTGTTGMTQQAGFGSLVPGIIGGARSIFPQIGKFVSTPTGAIATGVGTSVGVNMLTGSDMSKMKPVLTQSRRNKARVRQLVNFMGIEGAAQFLSHASGRRITGNDVVQLLLRTFRNDGAFITKAQVRNLRRTTNRFKSLEKQVKEATSMARTTRRASPMRRASSTTLIKN
Ga0181404_10427323F007722N/ADTVATLTGDIGTIKKSIQTLNNRINGLNSPKLNDELLQYAMKQQSNVTDINKKILGG
 ⦗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.