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 Ga0157380_10124432

Scaffold Ga0157380_10124432


Overview

Basic Information
Taxon OID3300014326 Open in IMG/M
Scaffold IDGa0157380_10124432 Open in IMG/M
Source Dataset NameSwitchgrass rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - S3-5 metaG
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)2189
Total Scaffold Genes6 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)3 (50.00%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (100.00%)
Associated Families2

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

Ecosystem & Geography

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

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

FamilyCategoryNumber of Sequences3D Structure?
F011444Metagenome / Metatranscriptome291Y
F020086Metagenome226Y

Sequences

Protein IDFamilyRBSSequence
Ga0157380_101244322F020086GGAGGMSIIDELIENLVERNTIKLNGAFTLTLVNGGVSVRGQVLSTLHDRKKSKDILNLKAPVAAEVRIGDIVIPVPQIK*
Ga0157380_101244323F011444AGGAGMSDVNVFLDSIGKDVSAAVVPKIEEFAETISTRTFTQYGPRVSAFANELVKDIIDEQSATVRDFVTGLIQDAFRRYQPELAGELRTRVVQGGLELTGQGIRLDLKNRETGVAVSSLDIPVSIMVKVDALGVTLQDATITLDVLG*
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