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 Ga0209068_10000083

Scaffold Ga0209068_10000083


Overview

Basic Information
Taxon OID3300027894 Open in IMG/M
Scaffold IDGa0209068_10000083 Open in IMG/M
Source Dataset NameFreshwater sediment microbial communities in response to fracking from Pennsylvania, USA - Cold Stream Run_MetaG_CSR_2012 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)56073
Total Scaffold Genes47 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)38 (80.85%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (100.00%)
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?
F036407Metagenome / Metatranscriptome170Y
F053421Metagenome / Metatranscriptome141Y
F065888Metagenome / Metatranscriptome127Y

Sequences

Protein IDFamilyRBSSequence
Ga0209068_1000008314F036407AGGAGGMAQVIEFYIPARFKSKVKWIPLEQRGKILSFPADLKKSA
Ga0209068_1000008323F065888GGAGMSASGLRKIACWIMIATVPVSLWAADSAPAMLYAKGAAWINGSAVPRTSAVFPGDLVQTKSDSIANINAAGSSVIVLADSLVKFEGPAVSLEHGSVTVSTSKGMTTHAGEVTVVPLSPGWTEFEVKQDSSGDVQVVAQKGDVSVSDGSGTSTLSQGQQTTVGNSPEKKKKRRRSGGGAVPAGMSGILDSPIVIYGGAAAVGGLTTWVLLQGGNPVSPIAP
Ga0209068_1000008341F053421GGAGMAQYRTVSLPEDLCAAAEKQLPDQFDSIEALLRFLLQEITKDESNKFDEAEEAIIQRRLRDLGYM
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