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 Ga0208082_1005620

Scaffold Ga0208082_1005620


Overview

Basic Information
Taxon OID3300020563 Open in IMG/M
Scaffold IDGa0208082_1005620 Open in IMG/M
Source Dataset NameFreshwater microbial communities from Lake Mendota, WI - 09JUN2009 deep hole epilimnion ns (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)3177
Total Scaffold Genes12 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)2 (16.67%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)0 (0.00%)
Associated Families3

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

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Freshwater → Lentic → Epilimnion → Freshwater → Freshwater Microbial Communities From Lake Mendota And Trout Bog Lake, Wisconsin, Usa

Source Dataset Sampling Location
Location NameLake Mendota, Madison, Wisconsin, USA
CoordinatesLat. (o)43.098333Long. (o)-89.405278Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F002303Metagenome / Metatranscriptome573Y
F007751Metagenome / Metatranscriptome345Y
F070108Metagenome123N

Sequences

Protein IDFamilyRBSSequence
Ga0208082_10056201F007751N/AMDCISDLKAVIGKEVSQNQSPTCRARLVSVGKSNCIFESVPSPYDKFPKPEFVGVKYKVPNWIAWNSFFF
Ga0208082_10056203F002303N/AMDIREKCYERATKFAIEYGFTNVSEHILDIMVSIMCTRDKSSYAGGGFVEAVVANNLYLAMSRADSDCRNNIFLLTMCNANCYS
Ga0208082_10056206F070108N/AMLFSLEEQMDIELILTEASAYGLSAEVEMYAQKYLAEGCTPVEAYEHAYNEWIK
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