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 Ga0210306_1187854

Scaffold Ga0210306_1187854


Overview

Basic Information
Taxon OID3300021312 Open in IMG/M
Scaffold IDGa0210306_1187854 Open in IMG/M
Source Dataset NameMetatranscriptome of estuarine water microbial communities from the Columbia River estuary, Oregon, United States ? R1072 (Metagenome Metatranscriptome)
Source Dataset CategoryMetatranscriptome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)891
Total Scaffold Genes3 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (50.00%)
Associated Families2

Taxonomy
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Armatimonadetes → unclassified Armatimonadetes → Armatimonadetes bacterium Cent15-Ar3(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Marine → Intertidal Zone → Estuary → Estuarine → Estuarine Microbial Communities From The Columbia River Estuary, To Analyze Effect Of Nutrient Fluxes, A Time Series

Source Dataset Sampling Location
Location NameUSA: Oregon
CoordinatesLat. (o)46.232Long. (o)-123.886Alt. (m)Depth (m)0
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F004232Metagenome / Metatranscriptome447Y
F016253Metagenome / Metatranscriptome248Y

Sequences

Protein IDFamilyRBSSequence
Ga0210306_11878542F016253GGAGGMSDKIKSFIDSGTGVYSITKKEAGEIHKAAKKVKNYAFSYWTRNRKNKESK
Ga0210306_11878543F004232N/APRNGSSATRNLDARSHKQTNKPMNKTIVACDPGVNGGFAIHTKDGILLFAMPESLPDMAQLINGFKVADSHLWVEKVPKFVSNLTPSSSVATLHENYGIIQGLAYSQGYALHRVEPKVWQEPLGLGGKRSCATGPEWKRKLKSKAQELYPQLDVTLKNCDALLILHYALGGGR
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