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 Ga0209974_10032699

Scaffold Ga0209974_10032699


Overview

Basic Information
Taxon OID3300027876 Open in IMG/M
Scaffold IDGa0209974_10032699 Open in IMG/M
Source Dataset NameArabidopsis thaliana rhizosphere microbial communities from the Joint Genome Institute, USA, that affect carbon cycling - Inoculated plant M3 S PM (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1724
Total Scaffold Genes4 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)2 (50.00%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Associated Families3

Taxonomy
Not Available(Source: )

Ecosystem & Geography

Source Dataset Ecosystem
Host-Associated → Plants → Rhizoplane → Epiphytes → Unclassified → Arabidopsis Thaliana Rhizosphere → Arabidopsis Thaliana Rhizosphere Microbial Communities From The Joint Genome Institute, Usa, That Affect Carbon Cycling

Source Dataset Sampling Location
Location NameJoint Genome Institute, California, USA
CoordinatesLat. (o)37.931388Long. (o)-122.021761Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F002508Metagenome / Metatranscriptome553Y
F002947Metagenome / Metatranscriptome518Y
F009024Metagenome / Metatranscriptome324Y

Sequences

Protein IDFamilyRBSSequence
Ga0209974_100326992F002508GGAMSSDDDQQPLYARWRNSDVSRNFHRLGLLVAAIILVAGLLLMAKDALGVKFWDLIPADIPILAGGIAIGLTGIGLVSLAAYGIVRAIGWAIDKSV
Ga0209974_100326993F009024N/AMLPVPIPNSRFRMHNSDYYREQAEHYRQLAASADDPAAKQEFLELAAACEEAADKMDDCRASG
Ga0209974_100326994F002947GAGMLMGAAVILSTIAPAQTFAEFEKTEWNVHELYKQCMERKGSLDKLFCLEFVSGVARQVFANGRTLKYIKDLPDLMTMSVPSACPKSFVSNDAMVEAFSAWANQHIEKWSASAQKGVMQAMRDTWPCF
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