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 Ga0068858_100015517

Scaffold Ga0068858_100015517


Overview

Basic Information
Taxon OID3300005842 Open in IMG/M
Scaffold IDGa0068858_100015517 Open in IMG/M
Source Dataset NameSwitchgrass rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS Switchgrass S1-2
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)7163
Total Scaffold Genes11 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)6 (54.55%)
Novel Protein Genes1 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (100.00%)
Associated Families1

Taxonomy
All Organisms → cellular organisms → Bacteria(Source: IMG/M)

Ecosystem & Geography

Source Dataset Ecosystem
Host-Associated → Plants → Rhizoplane → Epiphytes → 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?
F009755Metagenome / Metatranscriptome313Y

Sequences

Protein IDFamilyRBSSequence
Ga0068858_1000155178F009755AGGAGMSRLVRIGSAAAVLVFVAGIASLEADQQAVTLAVTMTNDPVSNEVKVYDVGSSALLQTLPTQGKGGAGGNARGVKQYRGEIVAVVNNGSNTVALYRRDGSGLRFDRLVTTTSAPVSVDFANDHMYVAGATTVDSFVIRGNSVERLDGTASLELAAGGAPPSGSTAQVGAIDGQRLLVTLKTDPDPGTVDIVPLADGAITGAAPIAVSAPAGTLTPFGFSVYPDGTAVITLAHSSQVGLFRDGGFTSVINATQTADCWSTRAGKYVFTANTGSKTISRLIGTGNHLFVDASVAASIASGGAPADIDSDQGVLGVIDHGAGQSHLSLFTYNAFGELSIGGAPINVGVANANGVAILAPADRNE*
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