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 Ga0256311_1047442

Scaffold Ga0256311_1047442


Overview

Basic Information
Taxon OID3300026565 Open in IMG/M
Scaffold IDGa0256311_1047442 Open in IMG/M
Source Dataset NameMetatranscriptome of freshwater microbial communities from Columbia River, Oregon, United States - Colum_Colum_RepC_8d (Metagenome Metatranscriptome)
Source Dataset CategoryMetatranscriptome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)981
Total Scaffold Genes4 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)1 (25.00%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (50.00%)
Associated Families2

Taxonomy
All Organisms → cellular organisms → Archaea → unclassified Archaea → archaeon(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Freshwater → River → Unclassified → Freshwater → Freshwater Microbial Communities Amended With Dissolved Organic Matter (Dom) From Various Rivers In The United States

Source Dataset Sampling Location
Location NameUSA: Oregon
CoordinatesLat. (o)46.1812Long. (o)-123.1834Alt. (m)Depth (m)5
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F009135Metagenome / Metatranscriptome322Y
F024047Metagenome / Metatranscriptome207N

Sequences

Protein IDFamilyRBSSequence
Ga0256311_10474421F024047GGAMTIVKTSEIIEWVKNAVEKKMIKELNFPNAKVYLSCDRPHPDVILETKNADGDLQIVRFLVI
Ga0256311_10474423F009135N/AMNKPKYYLTVNLPPNFDEVDAEAIKTDLMAYINSKNQYGAMYGPKSHKKGITIDKVIYRTNED

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