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 Ga0209258_100344

Scaffold Ga0209258_100344


Overview

Basic Information
Taxon OID3300025242 Open in IMG/M
Scaffold IDGa0209258_100344 Open in IMG/M
Source Dataset NameArabidopsis root microbial communities from North Carolina, USA - plate scrape CL_Col_mTSA_r2 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)68131
Total Scaffold Genes58 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)43 (74.14%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (100.00%)
Associated Families2

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

Ecosystem & Geography

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

Source Dataset Sampling Location
Location NameUSA: North Carolina
CoordinatesLat. (o)35.6667Long. (o)-78.5097Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F024826Metagenome / Metatranscriptome204Y
F040712Metagenome161Y

Sequences

Protein IDFamilyRBSSequence
Ga0209258_10034435F040712AGGMGPAEFRTPGAMSLRSSIVRRCLQSCFEATGLRVVNLPHVVDARQHVDPPVRLDAGYLVVDRRAFAWITFSRASDGGATSTRTVGFATLSGALRAICAERIGLAGRAAIPGPARAVELRRAGRWQEVLDASELVEAPMRARLDAWLRGGRFKAFRVALGLLKRF
Ga0209258_10034439F024826GAGMADATPYFGIAPFVLGMSRELVRATAGKPDSVETSADDDGSAVETWFYQGGDIELEFEAVPESKLESITAWSADITVNGVPLIGCELADLKRLARDADIHDLELTDDFADSGQCWQSEQHGLMLWVAKGKVVNLTIFPRFDDSGEEPQWPA
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