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 Ga0077119_10005999

Scaffold Ga0077119_10005999


Overview

Basic Information
Taxon OID3300005519 Open in IMG/M
Scaffold IDGa0077119_10005999 Open in IMG/M
Source Dataset NameCombined assembly of arab plate scrape CL_Col (Combined Assembly)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)13845
Total Scaffold Genes18 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)10 (55.56%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (100.00%)
Associated Families2

Taxonomy
All Organisms → cellular organisms → Bacteria → Proteobacteria(Source: IMG/M)

Ecosystem & Geography

Source Dataset Ecosystem
Host-Associated → Plants → Roots → Epiphytes → Unclassified → Arabidopsis Root → Arabidopsis, Maize, Boechera And Miscanthus Rhizosphere Microbial Communities From Different Us Locations

Source Dataset Sampling Location
Location NameUniversity of North Carolina, USA
CoordinatesLat. (o)35.9082Long. (o)-79.0499Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F012876Metagenome / Metatranscriptome276Y
F049748Metagenome / Metatranscriptome146Y

Sequences

Protein IDFamilyRBSSequence
Ga0077119_1000599914F012876AGGAGMNTNTNRFVALALSAAMALGIVAAVNGLANAQYAAADSQEMARYGQAHVAVQHVTIVGRHAA*
Ga0077119_1000599915F012876AGGAGMTTTANRLAAFTLSALATFSVVFGVNAMANSQYAAADSQEMARYGQTHVAVQHVTVVGRRADA*
Ga0077119_1000599916F049748GAGGMDIKQDPNAIPNFNAGGRVGELQPNEPEQAQSSVELDSTAGGDGAASEAAQHESLLDDGDAPPATRGDVSKKGGGAIDGLVGAP*

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