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 Ga0255078_1053873

Scaffold Ga0255078_1053873


Overview

Basic Information
Taxon OID3300027156 Open in IMG/M
Scaffold IDGa0255078_1053873 Open in IMG/M
Source Dataset NameFreshwater microbial communities from Columbia River, Oregon, United States - Colum_Atlam_RepA_8h
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)805
Total Scaffold Genes2 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)1 (50.00%)
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?
F002234Metagenome / Metatranscriptome579Y
F028726Metagenome / Metatranscriptome190Y

Sequences

Protein IDFamilyRBSSequence
Ga0255078_10538731F028726AGGMDNLIPNIKKYLLAVLLPTAIFVILALSSLKDIEKAFVRFRFGRDITLYLRRSTDNLTYLGAAYTTTGDKKFLEEFNAHLKERQNYFNNEVFISKILTQEELKEF
Ga0255078_10538732F002234N/AEVAKEADQNKAVLDSMSGMFGLNAVFWGLKKFVISALTTIIVFVVVFVILRLLATVHPAAAAAFSIFNMLGSMFVSIIKALTPKAFELSNLISKDKVEEFKSPLVKIVDVIQELKEKQKEFPDRVYPVTEALKRFDKEMDSKEKDLIDDILKEQKWIK
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