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 Ga0209067_10002582

Scaffold Ga0209067_10002582


Overview

Basic Information
Taxon OID3300027898 Open in IMG/M
Scaffold IDGa0209067_10002582 Open in IMG/M
Source Dataset NameFreshwater sediment microbial communities in response to fracking from Pennsylvania, USA - Cold Stream Run_MetaG_CSR_2013 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)10652
Total Scaffold Genes19 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)15 (78.95%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Associated Families3

Taxonomy
All Organisms → cellular organisms → Bacteria(Source: IMG/M)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Sediment → Unclassified → Unclassified → Watersheds → Freshwater And Sediment Microbial Communities From Various Areas In North America, Analyzing Microbe Dynamics In Response To Fracking

Source Dataset Sampling Location
Location NamePennsylvania, USA
CoordinatesLat. (o)41.1289Long. (o)-78.4195Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F006757Metagenome / Metatranscriptome365Y
F017708Metagenome239Y
F073812Metagenome120Y

Sequences

Protein IDFamilyRBSSequence
Ga0209067_1000258211F017708AGGCGGMAKVIEFYIPNNFRKPLRTSPQPQLGKIIEFCPQTKRLA
Ga0209067_1000258217F006757N/AMRDLAVLPPLKTKLRVALLSLAAYKEIPTEQLIAAARALPGGTRVHLPDRATTIAFLLGTRLVELN
Ga0209067_1000258218F073812GGAGMADPREELESALSPLAWILNFIWDTFRLMFWFFMSPILIITWCFHHPVEARLYAVSAIPLLWNGNWGTRGLLVFFVLLIASLFGKTMHKICWGIIKLALVAGLLWYIYMIFKLA
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