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 Ga0207646_10010875

Scaffold Ga0207646_10010875


Overview

Basic Information
Taxon OID3300025922 Open in IMG/M
Scaffold IDGa0207646_10010875 Open in IMG/M
Source Dataset NameCorn, switchgrass and miscanthus rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS K5-50-2 metaG (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)8844
Total Scaffold Genes12 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)9 (75.00%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (50.00%)
Associated Families2

Taxonomy
All Organisms → cellular organisms → Archaea(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)42.3948Long. (o)-85.3738Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F012566Metagenome / Metatranscriptome279Y
F030029Metagenome / Metatranscriptome186N

Sequences

Protein IDFamilyRBSSequence
Ga0207646_100108753F012566N/ALPSQNIGRNTEIENFSTQGDPDDNRTCKQILESDPAIRVAAFIEGAQVTGYAETPRTKNVLSQSGDLRKKVGFWVSIVTEMARQTDQLFGSTQYVCVTHKGLKMVTVPVSARRSLGLSLDRSADPDKIIMKIMAKFRFGQTV
Ga0207646_100108754F030029GGAGMLTIVPLLKQTLQTYAEKPGEFHRELQFYFGFGALTLERMIVKDLFQKLNLHYPSSNELDFETSIGLARKDLSSVQRGVAKK
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