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 Ga0307408_100192006

Scaffold Ga0307408_100192006


Overview

Basic Information
Taxon OID3300031548 Open in IMG/M
Scaffold IDGa0307408_100192006 Open in IMG/M
Source Dataset NameMaize rhizosphere microbial communities from greenhouse at UC Davis, California, United States - 322HYB-C-3
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1646
Total Scaffold Genes4 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)3 (75.00%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (50.00%)
Associated Families2

Taxonomy
All Organisms → cellular organisms → Bacteria → Bacteria incertae sedis → Bacteria candidate phyla → Candidatus Rokubacteria → unclassified Candidatus Rokubacteria → Candidatus Rokubacteria 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?
F002646Metagenome540Y
F025770Metagenome / Metatranscriptome200Y

Sequences

Protein IDFamilyRBSSequence
Ga0307408_1001920061F025770N/ASRAAEQSVLNWSGGLTKATVGLVALTEVAERAVRLGHDAVTTQTQLSAQISGPLVEQLRKHSEAAGALANRLQEDLRASEEAVRKVHHHLIDASRFILTKVDQRR
Ga0307408_1001920062F002646AGGTGGMTPRSRSARNRDIALTTLIDLLVQVVFVFTLILIAVDVVDGDPQKQGWVTPDAWKTLISIFDVDPQTIREPGAQLGEIVGKYDRLKLDLLACDGKAAACEKQAGRGPGNAPCRDERGVEMVVAEATIDHQGRITVAPGRHSGPLQHERPLAASAVGAPLTIEQFGALFRPWREHGLARQPACAFKAEVRYDPRAPAGAYEPARRAVASYFSLSAPPRRF
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