Genes Under QTL for QPCGA4.1 (v3.0)


QTL Info

Version QTL Name Linkage Group bp_start bp_end Description
3.0 QPCGA4.1 4 61770694 61895317 Total phenolic content in gallic acid equivalents (g of GAE/kg of flour)

 

Genes Under QTL (total genes found: 16)

Selection signature information is provided based on Mace et al 2013 and Mace et al 2014, which identified signatures of purifying and balancing selection based on whole genome resequencing of 47 individuals categorised into three groups (1. Wild and Weedy genotypes, 2. Landraces, 3. Improved Inbreds).

Regions of the genome under purifying and balancing selection were identified using the population genetics summary statistics (θπ, θw, Tajima’s D and FST) in the following three population pairwise comparisons: (i) wild and weedy versus landraces to identify domestication events, (ii) landraces versus improved inbreds to identify improvement events, (iii) wild and weedy versus improved inbreds to identify both domestication and improvement events.

Version Gene Name LG bp_start bp_end Annotation Selection Signature Browse gene at JGI
3.0 Sobic.004G273900 4 61770602 61771875 peroxidase precursor, putative, expressed https://phytozome.jgi.doe.gov/pz/portal.html#!gene?search=1&detail=1&method=5228&searchText=locusName:Sobic.004G273900
3.0 Sobic.004G274000 4 61772540 61773634 STE_MEK_ste7_MAP2K.4 - STE kinases include homologs to sterile 7, sterile 11 and sterile 20 from yeast, expressed https://phytozome.jgi.doe.gov/pz/portal.html#!gene?search=1&detail=1&method=5228&searchText=locusName:Sobic.004G274000
3.0 Sobic.004G274100 4 61774575 61778118 expressed protein https://phytozome.jgi.doe.gov/pz/portal.html#!gene?search=1&detail=1&method=5228&searchText=locusName:Sobic.004G274100
3.0 Sobic.004G274200 4 61779005 61786882 ara54-like RING finger protein, putative, expressed https://phytozome.jgi.doe.gov/pz/portal.html#!gene?search=1&detail=1&method=5228&searchText=locusName:Sobic.004G274200
3.0 Sobic.004G274300 4 61784962 61786177 no apical meristem protein, putative, expressed https://phytozome.jgi.doe.gov/pz/portal.html#!gene?search=1&detail=1&method=5228&searchText=locusName:Sobic.004G274300
3.0 Sobic.004G274400 4 61791760 61796307 GCN5-related N-acetyltransferase, putative, expressed https://phytozome.jgi.doe.gov/pz/portal.html#!gene?search=1&detail=1&method=5228&searchText=locusName:Sobic.004G274400
3.0 Sobic.004G274500 4 61797921 61799697 OsFBD8 - F-box and FBD domain containing protein, expressed https://phytozome.jgi.doe.gov/pz/portal.html#!gene?search=1&detail=1&method=5228&searchText=locusName:Sobic.004G274500
3.0 Sobic.004G274600 4 61806550 61813471 multidrug resistance protein, putative, expressed https://phytozome.jgi.doe.gov/pz/portal.html#!gene?search=1&detail=1&method=5228&searchText=locusName:Sobic.004G274600
3.0 Sobic.004G274700 4 61817845 61820755 SNARE associated Golgi protein, putative, expressed https://phytozome.jgi.doe.gov/pz/portal.html#!gene?search=1&detail=1&method=5228&searchText=locusName:Sobic.004G274700
3.0 Sobic.004G274800 4 61822795 61826114 retrotransposon protein, putative, unclassified, expressed https://phytozome.jgi.doe.gov/pz/portal.html#!gene?search=1&detail=1&method=5228&searchText=locusName:Sobic.004G274800
3.0 Sobic.004G274900 4 61830537 61837108 ubiquitin carboxyl-terminal hydrolase domain containing protein, expressed https://phytozome.jgi.doe.gov/pz/portal.html#!gene?search=1&detail=1&method=5228&searchText=locusName:Sobic.004G274900
3.0 Sobic.004G275000 4 61839488 61844842 heat shock protein DnaJ, putative, expressed https://phytozome.jgi.doe.gov/pz/portal.html#!gene?search=1&detail=1&method=5228&searchText=locusName:Sobic.004G275000
3.0 Sobic.004G275100 4 61849480 61850079 expressed protein Purifying (domestication) https://phytozome.jgi.doe.gov/pz/portal.html#!gene?search=1&detail=1&method=5228&searchText=locusName:Sobic.004G275100
3.0 Sobic.004G275200 4 61862258 61864319 zinc-binding protein, putative, expressed https://phytozome.jgi.doe.gov/pz/portal.html#!gene?search=1&detail=1&method=5228&searchText=locusName:Sobic.004G275200
3.0 Sobic.004G275400 4 61872877 61875219 RING-H2 finger protein ATL5G, putative, expressed https://phytozome.jgi.doe.gov/pz/portal.html#!gene?search=1&detail=1&method=5228&searchText=locusName:Sobic.004G275400
3.0 Sobic.004G275500 4 61879883 61883669 helix-loop-helix DNA-binding protein, putative, expressed https://phytozome.jgi.doe.gov/pz/portal.html#!gene?search=1&detail=1&method=5228&searchText=locusName:Sobic.004G275500