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_1001230

Scaffold Ga0181379_1001230


Overview

Basic Information
Taxon OID3300017783 Open in IMG/M
Scaffold IDGa0181379_1001230 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)12146
Total Scaffold Genes26 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)25 (96.15%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (100.00%)
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?
F000375Metagenome / Metatranscriptome1217Y
F013099Metagenome274Y
F016668Metagenome / Metatranscriptome245Y

Sequences

Protein IDFamilyRBSSequence
Ga0181379_100123011F016668AGGAGMIPVGQLRLLLTKAGLDYVITRVDGNVAHVNILVAEQPDVQR
Ga0181379_100123014F000375GGAGGMTKLYDLEPMIMDCWHVCEDLQVVFRQIGDGEREPTHDEMMNTLMGMQQLYHWKFEQLFNKYEDVLRDRQ
Ga0181379_100123017F013099AGGAGMNTVWLLIWFVLVPENGVRYYHLGTYDNETSCKTGLRDAAVMVNAKNETVECIGVQVDA

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