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 Ga0181423_1056859

Scaffold Ga0181423_1056859


Overview

Basic Information
Taxon OID3300017781 Open in IMG/M
Scaffold IDGa0181423_1056859 Open in IMG/M
Source Dataset NameMarine viral communities from the oligotrophic San Pedro Time Series (SPOT) site, San Pedro Channel, CA, USA ? 46 SPOT_SRF_2013-08-14
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1557
Total Scaffold Genes4 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)3 (75.00%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (100.00%)
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?
F018480Metagenome235Y
F053973Metagenome140Y

Sequences

Protein IDFamilyRBSSequence
Ga0181423_10568593F018480AGGMTYDLKNVFYLDTELTMPTATSAGESNTVQLDLSSYIDPIARGRAKGTGLAIYKVHYSVSSSSEGGKPDVVTQAGSFRGGIIAGAGFGNQAGATLTGEASFPSPNNALAVMGFDYYGAKSTIANASTPSGTFTKTFLMPSEKVPYVVVRDNVCLMSTQLVAMSTAAYVNVRLECAQVTLDQATLNQLLRTQTV
Ga0181423_10568594F053973GAGMGEKFSFGASSVMREVPPGQTAVIKFNGKAEKVETDWGDKFSYKILIFSHPSYESIPKEGIESTWQSKSQAAENLLKALES
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