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 Ga0181401_1001469

Scaffold Ga0181401_1001469


Overview

Basic Information
Taxon OID3300017727 Open in IMG/M
Scaffold IDGa0181401_1001469 Open in IMG/M
Source Dataset NameMarine viral communities from the oligotrophic San Pedro Time Series (SPOT) site, San Pedro Channel, CA, USA ? 24 SPOT_SRF_2011-07-20
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)9272
Total Scaffold Genes22 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)17 (77.27%)
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)0
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F023243Metagenome211N
F030882Metagenome184N
F077486Metagenome / Metatranscriptome117N

Sequences

Protein IDFamilyRBSSequence
Ga0181401_100146912F023243GGAMSPEIELDLYEITTAAQTGLLRVTESIKLNQDWGHKYSGTLEDKISKSISGAMAEISLCKYFGIPFEFHTNVGSAPDVKYKNYNIQVRSQTVKKNNNNSLIIRPQGVKPNEIYVFILSEAPKFTIKGFINSSAVIGKDNFLTDFNLARPKVWAVPLNILSPILLLKDGACN
Ga0181401_100146921F077486N/AMLNDLDSLLTESERNNMPKNNKILTNPVSMFRIDIVKVFKKRETLKDIFKCPKLQKKHKLQDFKHPL
Ga0181401_10014698F030882AGGMDFKELIDHYETLDKSELIEKLVFKNAKLLSQDNEIERCNDEIKRLDDVNEQHRKINGELSEEIKQLKQGEK
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