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 Ga0207712_10070621

Scaffold Ga0207712_10070621


Overview

Basic Information
Taxon OID3300025961 Open in IMG/M
Scaffold IDGa0207712_10070621 Open in IMG/M
Source Dataset NameSwitchgrass rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS S4-4 metaG (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)2509
Total Scaffold Genes7 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)5 (71.43%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (75.00%)
Associated Families4

Taxonomy
Not Available(Source: )

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 NameMichigan, USA
CoordinatesLat. (o)42.3948Long. (o)-85.3738Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F004196Metagenome449Y
F005576Metagenome / Metatranscriptome396Y
F012601Metagenome / Metatranscriptome279Y
F028015Metagenome193Y

Sequences

Protein IDFamilyRBSSequence
Ga0207712_100706212F005576GGAMSLKTYLCTLAIFCGGYVSNTLLDSAVEAAQTYFHLHTSNYKTDSGGYIICSNEKANDNLSPLSLNASGE
Ga0207712_100706214F012601N/AMRGGIRKPHKADRGEYRMTHSEVKDSHLVLVPARKSRGTDHADYDVKLGDASGPVVGRIMRHPQASEAQPWFWTITAREQPPSVYNRGYAASREQAMRYFKARYATD
Ga0207712_100706215F028015GGAMTNLLLSPTRKHYRIGDKDDYVVLDGGRVIGRIMLHPQAPDGHPWFWTITAPDIPPSLDERGYSATREEAMADFKARWLRPDH
Ga0207712_100706216F004196GAGMPEVNNHHRKRNFTSSDDALIRQQPVTGIGLKRLAWILRTNQETLRHRATELGVSLIFSGESEGAIDTRTLRCTHGFVDPLLERLKDVHGK
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