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 Ga0181379_1131324

Scaffold Ga0181379_1131324


Overview

Basic Information
Taxon OID3300017783 Open in IMG/M
Scaffold IDGa0181379_1131324 Open in IMG/M
Source Dataset NameMarine viral communities from the oligotrophic San Pedro Time Series (SPOT) site, San Pedro Channel, CA, USA ? 2 SPOT_SRF_2009-07-10
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)902
Total Scaffold Genes3 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)3 (100.00%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (100.00%)
Associated Families3

Taxonomy
All Organisms → Viruses → environmental samples → uncultured marine virus(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?
F033221Metagenome / Metatranscriptome178Y
F058106Metagenome135N
F080521Metagenome / Metatranscriptome115N

Sequences

Protein IDFamilyRBSSequence
Ga0181379_11313241F080521AGGAGMNINTVWTNTIDSISSVKDKVIDKYNSTNINPFPKNVNVTVKFDLVGTYSDLLKKFDSMSDKDMQRVVDILEKKSDIIQKIIVNKLDK
Ga0181379_11313242F033221AGGAGGMIPYNIEKQIEGDTDKHNNYQLINYEFPFPENSILIERDKEAKRIQQSFVTSIKQSLINNNN
Ga0181379_11313243F058106AGGAGMTQGTFESYIDTKSPEERKQYVDEQIALGNPKYKDRNTWLKENADKIRISKLEAQISEILARLPK
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