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 Ga0209853_1006303

Scaffold Ga0209853_1006303


Overview

Basic Information
Taxon OID3300027961 Open in IMG/M
Scaffold IDGa0209853_1006303 Open in IMG/M
Source Dataset NameGroundwater microbial communities from the Columbia River, Washington, USA - GW-RW S1_30_40 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)3682
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(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Sand → Unclassified → Groundwater Sand → Groundwater Microbial Communities From The Columbia River, Washington, Usa

Source Dataset Sampling Location
Location NameUSA: Columbia River, Washington
CoordinatesLat. (o)46.372Long. (o)-119.272Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F013707Metagenome / Metatranscriptome269Y
F038298Metagenome / Metatranscriptome166Y

Sequences

Protein IDFamilyRBSSequence
Ga0209853_10063032F038298GAGGMHHGSSARRFLPTLMAGLLLALVAVSDALAGEWEKIRESYDKTLRTHEKRIGEIEAKERGVSDQEQRSDKITRDRVTSIRASLKGGGKGKSLADAAEKASGDARALADLYREQSEHLDVVTSEWGAQGAERKKLREAMATVQKNFERVNGNLTRAAQATIAGVKPSDVLEKAARIEAAVSEASERLRARWQLEQAARERESKQREREAAERARGAR
Ga0209853_10063033F013707N/AVVLPGDSPADAWARYATSPESGTSPVSVPAVVTFVYRTDVPKAPETVTQSTLQQQQALRTSVAALPTELRRIEGRFGLVQRELAATKQDTDKALADMRALAEDLAAVRKFMLQTAQLGWLNHELNVENTSGMRRMAAASQELTASSARLEDTLRQLSESLGSQLKELAARLDAIQGKVQNIK
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