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 Ga0070709_10254594

Scaffold Ga0070709_10254594


Overview

Basic Information
Taxon OID3300005434 Open in IMG/M
Scaffold IDGa0070709_10254594 Open in IMG/M
Source Dataset NameCorn, switchgrass and miscanthus rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - LAR L5-1 metaG
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1266
Total Scaffold Genes3 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)1 (33.33%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (50.00%)
Associated Families2

Taxonomy
All Organisms → cellular organisms → Bacteria → Acidobacteria(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Loam → Agricultural Soil → Corn, Switchgrass And Miscanthus 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)42.4774Long. (o)-85.451Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000822Metagenome / Metatranscriptome876Y
F001220Metagenome / Metatranscriptome744Y

Sequences

Protein IDFamilyRBSSequence
Ga0070709_102545942F001220N/AMRDASTIRRVVRAAAAVVLIAGIPNAWGQARVIELTADKDSRYKIPGLATPEITVHANEQILLRVTANKAKSWNRDGSIHGFTLLRAKDRSRVEGWDLLLKPGKQEFILTAPTEPGAYEVVCTVICSEEHEGMHMKFTVLP*
Ga0070709_102545943F000822GAGGMKRTISSVGVVMLIAAAFGQSAQVFHGEISDSQCALNVHSLTRSHQEMLKSKSMGGTPNTCTLYCVEHYGGYLVLSAGKNVYRLDRADLIHGFEGRKVVVSGVLDSKLHQIHVLKIDLEEKP*
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