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_10713631

Scaffold Ga0213853_10713631


Overview

Basic Information
Taxon OID3300021861 Open in IMG/M
Scaffold IDGa0213853_10713631 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)1241
Total Scaffold Genes5 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)2 (40.00%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Associated Families3

Taxonomy
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Rhodospirillales → Acetobacteraceae(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?
F006433Metagenome / Metatranscriptome373Y
F007657Metagenome / Metatranscriptome347Y
F061592Metagenome / Metatranscriptome131Y

Sequences

Protein IDFamilyRBSSequence
Ga0213853_107136312F061592AGGAMSALPNRDPSDDDFKPSEHKAADALKDQLRRDVASWREGRADGSSRQATELSVAVARTIVPPTTAKMKRATSAAAPVKAATAEKKPFGMSYDGTSRADYIKQMISRGAR
Ga0213853_107136313F007657N/AVSWVTFEAAAGGLVAVQLRHVVAIYDEQGEVKLATTAGGVHTLKDITVQRAAGIVSRAEDAVAVRPTEA
Ga0213853_107136314F006433GGAMSDTSYRIVHREDDSFAVEIVSVGALPQTATGFATEAAAKGWIAQDQRLRTSADPFATPVGRKWQRY
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