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 Ga0307405_10150578

Scaffold Ga0307405_10150578


Overview

Basic Information
Taxon OID3300031731 Open in IMG/M
Scaffold IDGa0307405_10150578 Open in IMG/M
Source Dataset NameMaize rhizosphere microbial communities from greenhouse at UC Davis, California, United States - 322HYB-C-1
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1635
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 → Terrabacteria group → Actinobacteria → Rubrobacteria → Rubrobacterales → Rubrobacteraceae → unclassified Rubrobacteraceae → Rubrobacteraceae bacterium(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Host-Associated → Plants → Rhizosphere → Unclassified → Unclassified → Rhizosphere → Maize Rhizosphere Microbial Communities From Greenhouse At Uc Davis, California, United States

Source Dataset Sampling Location
Location NameUSA: California
CoordinatesLat. (o)38.5Long. (o)-121.7Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F004101Metagenome / Metatranscriptome453Y
F019791Metagenome / Metatranscriptome227Y

Sequences

Protein IDFamilyRBSSequence
Ga0307405_101505782F019791AGGAGGMYWYNPTTQTSERVAAPSDDEEAIHMLAGHPDSAAFVSEYAELRCSGTPIERALVSVGHQERLWEHQYTPMRPAAHNRPSKRRSRSRAIGYELLLAVRLREEGKDRLQGGALPDEGMMRNIT
Ga0307405_101505783F004101N/AVGYLISAAEGKTRVNLTDPQWRALIYVASQHGFSAPHLRLEGKDETLEVDGSDAEGLRSALGKALEARDIEEIMTPAGELDYDTIQRVRHVLLSEGVRLARPPA

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