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 Ga0055542_1008016

Scaffold Ga0055542_1008016


Overview

Basic Information
Taxon OID3300003762 Open in IMG/M
Scaffold IDGa0055542_1008016 Open in IMG/M
Source Dataset NameArabidopsis root microbial communities from North Carolina, USA - plate scrape CL_Col_mMF_r2
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)2095
Total Scaffold Genes5 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)3 (60.00%)
Novel Protein Genes1 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (100.00%)
Associated Families1

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

Ecosystem & Geography

Source Dataset Ecosystem
Host-Associated → Plants → Roots → Endophytes → Unclassified → Arabidopsis Root → Arabidopsis, Maize, Boechera And Miscanthus Rhizosphere Microbial Communities From Different Us Locations

Source Dataset Sampling Location
Location NameUSA: North Carolina
CoordinatesLat. (o)35.6667Long. (o)-78.5097Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F079536Metagenome / Metatranscriptome115Y

Sequences

Protein IDFamilyRBSSequence
Ga0055542_10080162F079536GGAGGMSIDSLSPAVGSGRANEVLLKQLGEVTVQASRLEHLAVEIAQNLKIDATVADAVPSLQDSKLTPPPWSTISAKDIKNWAASTGRLLEIRDSMFEASGAARFAGSRGDTIATESADGTVFPADEEYLGRYLKRLTRHLAAGSELLSRLDYHDENGQRWPLVTIYAQRAPGEGSEQTPLRLPEAWQRWLSA*
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