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 Ga0207697_10102918

Scaffold Ga0207697_10102918


Overview

Basic Information
Taxon OID3300025315 Open in IMG/M
Scaffold IDGa0207697_10102918 Open in IMG/M
Source Dataset NameSwitchgrass rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA, with PhiX - S5 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1218
Total Scaffold Genes3 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (50.00%)
Associated Families2

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

Ecosystem & Geography

Source Dataset Ecosystem
Host-Associated → Plants → Rhizoplane → Epiphytes → Unclassified → Corn, Switchgrass And Miscanthus Rhizosphere → Corn, Switchgrass And Miscanthus Rhizosphere Microbial Communities From Kellogg Biological Station, Michigan, Usa

Source Dataset Sampling Location
Location NameKellogg Biological Station, Michigan, USA
CoordinatesLat. (o)42.3948Long. (o)-85.3738Alt. (m)Depth (m)0
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F009929Metagenome / Metatranscriptome311Y
F039353Metagenome / Metatranscriptome164Y

Sequences

Protein IDFamilyRBSSequence
Ga0207697_101029181F039353AGGVAEQPLPPTAVVGFRSEASVAKDGSPAANIDADCALIGLKEMPITPVDVKHHALEVARGEISGLAVQRAAFIHDFERRQDPALL
Ga0207697_101029182F009929N/AMKFFLLTGAHRAAVFSSIHMKTIILILAAIATMSFAICLDAQGQRLSLPEGQADSRTPLPAQFRVSVEKGIITLRDVNNGKVLGRTTFERWGVVTPTQDKLRHVALDVTAAVVAGNGSRERIVNPFHKVYTVADHKKGKAAYATMTLEHNLAFVLSTDTQTKGRYEALIENRP
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