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 Ga0132255_100012705

Scaffold Ga0132255_100012705


Overview

Basic Information
Taxon OID3300015374 Open in IMG/M
Scaffold IDGa0132255_100012705 Open in IMG/M
Source Dataset NameCol-0 rhizosphere combined assembly
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)9974
Total Scaffold Genes11 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)8 (72.73%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (50.00%)
Associated Families2

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

Ecosystem & Geography

Source Dataset Ecosystem
Host-Associated → Plants → Rhizoplane → Unclassified → Unclassified → Arabidopsis Rhizosphere → Arabidopsis Rhizosphere Microbial Communities From The University Of North Carolina

Source Dataset Sampling Location
Location NameUniversity of North Carolina
CoordinatesLat. (o)35.9Long. (o)-79.05Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F001983Metagenome / Metatranscriptome608Y
F051500Metagenome144Y

Sequences

Protein IDFamilyRBSSequence
Ga0132255_10001270510F001983AGGAMTRKNTWVIVAAAALLGFPLSGCKDSKTLQENAQLKAQVVELQKENGQVGNDLETMTAARDALTKENEKLKAEIRTLKGKHSAKKTAAKKHTRSR*
Ga0132255_1000127055F051500N/AMNDHSHPPLFPGDLPPAEALSGIARLRHSAADSLFQIAQAYPKLLALRSTPGAWTAFRVALGFIGAGLVVLPLSLWNAWAFAPVGLVFFLLAVLLPPIRRDRGAGKAVQQLGAYLVLDGGRLACGPLSPDRVSPENAEPCAVNLYLTQTRVWALDPQLRPVVVIPAEEIDLVTAFPSQGDWLLRVSWQNGSAEFSFAGFFAERRARRAEQGLRHLVHSAAVTVEKNLAAKTKAAGA*
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