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 Ga0187221_1002809

Scaffold Ga0187221_1002809


Overview

Basic Information
Taxon OID3300017769 Open in IMG/M
Scaffold IDGa0187221_1002809 Open in IMG/M
Source Dataset NameMarine viral communities from the oligotrophic San Pedro Time Series (SPOT) site, San Pedro Channel, CA, USA ? 5 SPOT_SRF_2009-10-22 (version 2)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)8149
Total Scaffold Genes16 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)15 (93.75%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Associated Families3

Taxonomy
Not Available(Source: )

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?
F001655Metagenome / Metatranscriptome656Y
F002858Metagenome / Metatranscriptome525Y
F073499Metagenome / Metatranscriptome120Y

Sequences

Protein IDFamilyRBSSequence
Ga0187221_100280910F001655GGAGGVKQPENGHTKHFGNDGPIGNDAEIIVYYEERGPAEPVLRIPFWYCKDELGMHEHFEESVRRTAKALAESYTYWPDGYVHVQTIINQEYVNIL
Ga0187221_100280911F073499N/AMTEQQLEQWIRDNPWKANVIYPAGGIGFMMFIMYTCIQIIDSFLTGKFI
Ga0187221_10028099F002858AGGAGMFIDEKSIYVVDGGDYSVYCLGYTQARTVTNDIMKADPWGGIPFVLRKDLELSLDDRGNVVMTKSTLDKILELASDELPEGEQ
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