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 Ga0213853_10516570

Scaffold Ga0213853_10516570


Overview

Basic Information
Taxon OID3300021861 Open in IMG/M
Scaffold IDGa0213853_10516570 Open in IMG/M
Source Dataset NameMetatranscriptome of freshwater sediment microbial communities from post-fracked creek in Pennsylvania, United States - ABR_2016 (Metagenome Metatranscriptome)
Source Dataset CategoryMetatranscriptome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)2204
Total Scaffold Genes4 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)4 (100.00%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (100.00%)
Associated Families2

Taxonomy
All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Freshwater → Sediment → 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 NameUSA: Pennsylvania
CoordinatesLat. (o)41.1752Long. (o)-78.4168Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F003703Metagenome / Metatranscriptome473Y
F015512Metagenome / Metatranscriptome254Y

Sequences

Protein IDFamilyRBSSequence
Ga0213853_105165702F015512AGGAGMGATVATPEAAADRREPEPRPTVESRPTRERTISTGKPAEETGSRRGGKRRRASKDNEATGTIRYFLTKPTSNGTPELGEEMADEHQALLAAHKADRSFVTIEEWTAKADRRKGVTVLGKDPVVRH
Ga0213853_105165703F003703AGGAGMFLHRVKMNWKKHQTLTSTILLVALARIVLENGFGEAPLSGYAILQIGVRVLIAMVAWAFLKTCWELGTVYYKRLCTFVVALRRFCREYWSRTAAV
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Institute for Fundamental Biomedical Research
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