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_10002823

Scaffold Ga0209067_10002823


Overview

Basic Information
Taxon OID3300027898 Open in IMG/M
Scaffold IDGa0209067_10002823 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)10196
Total Scaffold Genes12 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)5 (41.67%)
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?
F000348Metagenome / Metatranscriptome1250Y
F022484Metagenome / Metatranscriptome214Y
F092524Metagenome / Metatranscriptome107Y

Sequences

Protein IDFamilyRBSSequence
Ga0209067_100028233F022484N/AMAPSKQVRRSVTLPARLAEQVERIARKKRLSDNRVLVELVEQGLEAQKEKEKAFFALAERFRASSDLEEVKRLGDQMGRFVFGE
Ga0209067_100028235F092524GGAGVADGDIWVGLACLKANPNVKNFRRFGKGKGAYVNVVAWAQSKGAFEEKVKRHAEGLDCILVDLKKVQLLESRMSTSDFPEEFITMRQTANRQPNDTVFGTFHIWHQEEAN
Ga0209067_100028239F000348GGALKKALLILAAVVLAPVLVVSLAVLAAGDWRLIGQTEAGDKVSVSSVHVLKNNQRVALVRVEYKEPAQLPQGGPFVEMRARVRFNCTTGSVAPTTEWFYSRDRSGRPVVSKKSSHDDKFGGGGEGAFADMVSKSVCSQTK
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