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 Ga0068863_100020714

Scaffold Ga0068863_100020714


Overview

Basic Information
Taxon OID3300005841 Open in IMG/M
Scaffold IDGa0068863_100020714 Open in IMG/M
Source Dataset NameSwitchgrass rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS Switchgrass S6-2
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)6280
Total Scaffold Genes10 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)5 (50.00%)
Novel Protein Genes1 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (100.00%)
Associated Families1

Taxonomy
All Organisms → cellular organisms → Bacteria → Acidobacteria → Acidobacteriia(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?
F029473Metagenome / Metatranscriptome188Y

Sequences

Protein IDFamilyRBSSequence
Ga0068863_1000207147F029473AGGAGGVRKSLFLAVLAFVLAASSALAYVVKLKDGSLIFARVKYTVKGDKAIITLENGTVTAIKLDQIDVEGSEQYNKENFGNVVALDTPESRKPTAIPNAAAAAVPRLQDYIREKKPRMSLPSGQSEKPAADGEGPSFQAVDANLQSAFTKVFDGAGISQYKLTNFRGKMRLLVTANTEEAVFNAMNAAARALSDPSSRGVPVTIQIILTTSAGESGGTLEMSPEQARLLVNGQVSAADYYVKNVAL*
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Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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