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 Ga0268266_10000227

Scaffold Ga0268266_10000227


Overview

Basic Information
Taxon OID3300028379 Open in IMG/M
Scaffold IDGa0268266_10000227 Open in IMG/M
Source Dataset NameSwitchgrass rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS S1-3 metaG (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)97786
Total Scaffold Genes85 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)70 (82.35%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (100.00%)
Associated Families2

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

Ecosystem & Geography

Source Dataset Ecosystem
Host-Associated → Plants → Rhizosphere → Soil → 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?
F051500Metagenome144Y
F054383Metagenome / Metatranscriptome140Y

Sequences

Protein IDFamilyRBSSequence
Ga0268266_1000022731F051500AGGAGMNQHSQPPLLPGDLPSAEAISGIARFRNSVTGSIFQISRAFPKLLALRSTPGAWTVSRMLLGVIGAGLVVLPLSLWNAWAFAPVGLALFLLAVLLPPIRHDRGTAKAVQQLGAYLVLDGGRLACGPLAAENSRPCAVHLYLTQTRVWALDPDLRPVVVIPAEEINVVTAFPSQDDWTLQVSWQNGSAEFSFSGLFAERRARLAEQGLRHLVHSAERPLQQPRQAKARAAGA
Ga0268266_1000022781F054383GGAGMTKELKKKRDAAKQAWENASVVMKKAKNVADFTGVRKAHDEAEKLRVEYLKAEKISETDSDDSENALVMSAHN
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