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 Ga0207681_10255533

Scaffold Ga0207681_10255533


Overview

Basic Information
Taxon OID3300025923 Open in IMG/M
Scaffold IDGa0207681_10255533 Open in IMG/M
Source Dataset NameSwitchgrass rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS S5-3 metaG (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1370
Total Scaffold Genes4 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)3 (75.00%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (100.00%)
Associated Families2

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

Ecosystem & Geography

Source Dataset Ecosystem
Host-Associated → Plants → Rhizosphere → Soil → Unclassified → Switchgrass Rhizosphere → Corn, Switchgrass And Miscanthus Rhizosphere Microbial Communities From Kellogg Biological Station, Michigan, Usa

Source Dataset Sampling Location
Location NameUSA: Michigan, Kellogg Biological Station
CoordinatesLat. (o)42.3948Long. (o)-85.3738Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F018956Metagenome / Metatranscriptome232Y
F023245Metagenome / Metatranscriptome211Y

Sequences

Protein IDFamilyRBSSequence
Ga0207681_102555332F018956AGGAGMTDCRRCAQEVDRAFRYCPWCGAPLRIKVTELFQGADGKALRVSRYFGDDEREPEVRVSLWSEALERNLRAEAAVSLSEEEAARLAGFLAETTAPDEAQTL
Ga0207681_102555333F023245AGGMNAGRGTTRRNQDVFRSANERLLVAVADQIEDTRPIPFLCECLDPACRSTVQLTVGQFRDLREKQGYFAIVTGHPTLDDERIVETDGDVTIVVKAA

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