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_10011304

Scaffold Ga0209067_10011304


Overview

Basic Information
Taxon OID3300027898 Open in IMG/M
Scaffold IDGa0209067_10011304 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)4693
Total Scaffold Genes8 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)4 (50.00%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (100.00%)
Associated Families3

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

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?
F001596Metagenome / Metatranscriptome666Y
F010114Metagenome / Metatranscriptome308Y
F033181Metagenome178Y

Sequences

Protein IDFamilyRBSSequence
Ga0209067_100113042F033181AGGAGMSFEAAWGFDPDKAIQAQSLSASEIETDKSAYSAEEQRAARIPSDVHAQVYELRRMYRL
Ga0209067_100113044F010114GAGGMTIEFNDEETRLLYNILLEQAAEHLIYANSSEVAERLYKLATRFERSVTTGSVNIA
Ga0209067_100113045F001596AGGAGMSWFHSSTAPVDARNHASPAEIVACFQDQRQLLGKLAFLITGDQATAEQAIVAACEVTLRGNSPFHDWLFEWAKAATITSAISQRAVAIRLCGSEYKARPCNHAEHLLQADAEERAASLNRMLRADGQRVIAELDPLCRAVLVLKVAIRSSIQDCVIRLNVSRAAVLSANCRAMAWLHDCQTTPVETITPLQVPPDNVGTGSGLEQSAHSK
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