Genes Under QTL for QPCGA4.1 (v2.1)


QTL Info

Version QTL Name Linkage Group bp_start bp_end Description
2.1 QPCGA4.1 4 61085882 61276817 Total phenolic content in gallic acid equivalents (g of GAE/kg of flour)

 

Genes Under QTL (total genes found: 23)

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
2.1 Sobic.004G273900 4 61086210 61087199 similar to Class III peroxidase 70 precursor https://phytozome.jgi.doe.gov/pz/portal.html#!gene?search=1&detail=1&method=5228&searchText=locusName:Sobic.004G273900
2.1 Sobic.004G274000 4 61087107 61089371 similar to Putative MAP kinase kinase https://phytozome.jgi.doe.gov/pz/portal.html#!gene?search=1&detail=1&method=5228&searchText=locusName:Sobic.004G274000
2.1 Sobic.004G274100 4 61090000 61093648 similar to Putative uncharacterized protein B1053A04.5 https://phytozome.jgi.doe.gov/pz/portal.html#!gene?search=1&detail=1&method=5228&searchText=locusName:Sobic.004G274100
2.1 Sobic.004G274200 4 61094342 61102402 similar to Putative uncharacterized protein https://phytozome.jgi.doe.gov/pz/portal.html#!gene?search=1&detail=1&method=5228&searchText=locusName:Sobic.004G274200
2.1 Sobic.004G274400 4 61107146 61112065 similar to GCN5-related N-acetyltransferase-like https://phytozome.jgi.doe.gov/pz/portal.html#!gene?search=1&detail=1&method=5228&searchText=locusName:Sobic.004G274400
2.1 Sobic.004G274600 4 61121053 61129025 similar to MDR-like ABC transporter https://phytozome.jgi.doe.gov/pz/portal.html#!gene?search=1&detail=1&method=5228&searchText=locusName:Sobic.004G274600
2.1 Sobic.004G274700 4 61133273 61136316 similar to Putative uncharacterized protein https://phytozome.jgi.doe.gov/pz/portal.html#!gene?search=1&detail=1&method=5228&searchText=locusName:Sobic.004G274700
2.1 Sobic.004G274800 4 61138247 61141637 similar to OSIGBa0142I02-OSIGBa0101B20.14 protein https://phytozome.jgi.doe.gov/pz/portal.html#!gene?search=1&detail=1&method=5228&searchText=locusName:Sobic.004G274800
2.1 Sobic.004G274900 4 61146085 61152541 similar to Putative uncharacterized protein https://phytozome.jgi.doe.gov/pz/portal.html#!gene?search=1&detail=1&method=5228&searchText=locusName:Sobic.004G274900
2.1 Sobic.004G275000 4 61154845 61160379 similar to DnaJ protein-like https://phytozome.jgi.doe.gov/pz/portal.html#!gene?search=1&detail=1&method=5228&searchText=locusName:Sobic.004G275000
2.1 Sobic.004G275100 4 61164941 61165540 similar to Putative uncharacterized protein Purifying (domestication) https://phytozome.jgi.doe.gov/pz/portal.html#!gene?search=1&detail=1&method=5228&searchText=locusName:Sobic.004G275100
2.1 Sobic.004G275200 4 61177600 61179911 similar to Putative zinc-binding protein https://phytozome.jgi.doe.gov/pz/portal.html#!gene?search=1&detail=1&method=5228&searchText=locusName:Sobic.004G275200
2.1 Sobic.004G275400 4 61188249 61191094 similar to Zinc finger (C3HC4-type RING finger)-like https://phytozome.jgi.doe.gov/pz/portal.html#!gene?search=1&detail=1&method=5228&searchText=locusName:Sobic.004G275400
2.1 Sobic.004G275500 4 61195344 61199523 similar to Putative uncharacterized protein https://phytozome.jgi.doe.gov/pz/portal.html#!gene?search=1&detail=1&method=5228&searchText=locusName:Sobic.004G275500
2.1 Sobic.004G275600 4 61211358 61215565 similar to Chromosome chr2 scaffold_11, whole genome shotgun sequence https://phytozome.jgi.doe.gov/pz/portal.html#!gene?search=1&detail=1&method=5228&searchText=locusName:Sobic.004G275600
2.1 Sobic.004G275700 4 61219141 61226472 similar to AP47/50p https://phytozome.jgi.doe.gov/pz/portal.html#!gene?search=1&detail=1&method=5228&searchText=locusName:Sobic.004G275700
2.1 Sobic.004G275800 4 61229367 61230905 similar to Putative immediate-early fungal elicitor protein CMPG1 https://phytozome.jgi.doe.gov/pz/portal.html#!gene?search=1&detail=1&method=5228&searchText=locusName:Sobic.004G275800
2.1 Sobic.004G275900 4 61234670 61239058 similar to Putative uncharacterized protein https://phytozome.jgi.doe.gov/pz/portal.html#!gene?search=1&detail=1&method=5228&searchText=locusName:Sobic.004G275900
2.1 Sobic.004G276100 4 61248611 61251408 similar to Putative uncharacterized protein https://phytozome.jgi.doe.gov/pz/portal.html#!gene?search=1&detail=1&method=5228&searchText=locusName:Sobic.004G276100
2.1 Sobic.004G274300 4 61100423 61101638 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
2.1 Sobic.004G274500 4 61113382 61114914 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
2.1 Sobic.004G275300 4 61179977 61180860 Purifying (improvement) https://phytozome.jgi.doe.gov/pz/portal.html#!gene?search=1&detail=1&method=5228&searchText=locusName:Sobic.004G275300
2.1 Sobic.004G276000 4 61240748 61243054 https://phytozome.jgi.doe.gov/pz/portal.html#!gene?search=1&detail=1&method=5228&searchText=locusName:Sobic.004G276000