NMPFamsDB

NMPFamsDB

NMPFamsDB

A database of Novel Metagenome Protein Families

A database of Novel Metagenome Protein Clusters

A database of Novel Metagenome Protein Clusters
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Scaffold Ga0181420_1019033

Scaffold Ga0181420_1019033


Overview

Basic Information
Taxon OID3300017757 Open in IMG/M
Scaffold IDGa0181420_1019033 Open in IMG/M
Source Dataset NameMarine viral communities from the oligotrophic San Pedro Time Series (SPOT) site, San Pedro Channel, CA, USA ? 43 SPOT_SRF_2013-05-22
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)2293
Total Scaffold Genes5 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)3 (60.00%)
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
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F002374Metagenome / Metatranscriptome566Y
F013311Metagenome / Metatranscriptome272Y

Sequences

Protein IDFamilyRBSSequence
Ga0181420_10190332F013311AGGAGGLAFLGDFGKFFGLGSSEEVLGDVGQAVGTFVGGPGGGQIGRKIGETVGDATSDLAGGGASPVSTADQALEQSAVPVSQRGNVPQETSTMTGTTGMTQQAGFGSLVPGIIGGARSIFPQIGKFVSTPTGAIATGVGTSVGVNMLTGSDMSKMKPVLTQSRRNKARVRQLVNFMGIEGAAQFLSQASGRRITVNDVVQLLLRTFRNDGAFITKAQVRNLRRTTNRFKSLEKQVKEATSMARTTRRASPMRRASSTTLIKN
Ga0181420_10190335F002374N/AMNQVLLYASVILASLSFFLCLYACARVGRLLKSVKGLEWDTVATLTGDIGTIKKSIQTLNNRINGLNSPKLNDELLQYAMKQQSNVTDINKKIL
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