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 Ga0207676_10398329

Scaffold Ga0207676_10398329


Overview

Basic Information
Taxon OID3300026095 Open in IMG/M
Scaffold IDGa0207676_10398329 Open in IMG/M
Source Dataset NameSwitchgrass rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS Switchgrass S7-2 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1286
Total Scaffold Genes3 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)1 (33.33%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (50.00%)
Associated Families2

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

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?
F049971Metagenome146Y
F050699Metagenome145N

Sequences

Protein IDFamilyRBSSequence
Ga0207676_103983292F049971AGGMRDIRRYWREVRDLEATLPEFVWLVDMEGSVPVEVPAGLGAQLLIGKSHRAASDEELGLQREKELAAGKELKRERRRREGVAVITPPG
Ga0207676_103983293F050699N/AVLSQDLQTRVAEAVQQAESQAPVAEAAGAQQQAQDCLERLRASERVLNRHAKEARERVLELSEKALENLVDAAASGKKLEFKKLDEVAAGEGQIRALGQAIERLTEHLIPRAQIASLREEAHALEAKARALERMAQERAEKVLEQLRGAVSEEMVLPVDMSKGVAGALLARAAGLKRLAVQVSENADRIERTYHLMHGAINGDRRGV
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