Genes Under QTL for QRCHL2.2 (v2.1)


QTL Info

Version QTL Name Linkage Group bp_start bp_end Description
2.1 QRCHL2.2 2 65592406 65915115 flag-rachis length(Year 2009)

 

Genes Under QTL (total genes found: 38)

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.002G272900 2 65592617 65594659 similar to Homeodomain leucine zipper protein https://phytozome.jgi.doe.gov/pz/portal.html#!gene?search=1&detail=1&method=5228&searchText=locusName:Sobic.002G272900
2.1 Sobic.002G273100 2 65604703 65607857 similar to 30S ribosomal protein S31, mitochondrial precursor https://phytozome.jgi.doe.gov/pz/portal.html#!gene?search=1&detail=1&method=5228&searchText=locusName:Sobic.002G273100
2.1 Sobic.002G273200 2 65608390 65613503 similar to Os09g0528000 protein https://phytozome.jgi.doe.gov/pz/portal.html#!gene?search=1&detail=1&method=5228&searchText=locusName:Sobic.002G273200
2.1 Sobic.002G273300 2 65619462 65623115 similar to Putative uncharacterized protein OJ1439_F07.29 https://phytozome.jgi.doe.gov/pz/portal.html#!gene?search=1&detail=1&method=5228&searchText=locusName:Sobic.002G273300
2.1 Sobic.002G273400 2 65626759 65628317 similar to Auxin-responsive protein IAA26 Balancing (domestication) https://phytozome.jgi.doe.gov/pz/portal.html#!gene?search=1&detail=1&method=5228&searchText=locusName:Sobic.002G273400
2.1 Sobic.002G273500 2 65633945 65638150 similar to Endoglucanase 23 precursor https://phytozome.jgi.doe.gov/pz/portal.html#!gene?search=1&detail=1&method=5228&searchText=locusName:Sobic.002G273500
2.1 Sobic.002G273600 2 65638261 65640308 similar to Putative Cytochrome P450 https://phytozome.jgi.doe.gov/pz/portal.html#!gene?search=1&detail=1&method=5228&searchText=locusName:Sobic.002G273600
2.1 Sobic.002G273700 2 65642281 65644275 similar to Putative Cytochrome P450 https://phytozome.jgi.doe.gov/pz/portal.html#!gene?search=1&detail=1&method=5228&searchText=locusName:Sobic.002G273700
2.1 Sobic.002G273800 2 65645244 65647347 similar to Putative Cytochrome P450 https://phytozome.jgi.doe.gov/pz/portal.html#!gene?search=1&detail=1&method=5228&searchText=locusName:Sobic.002G273800
2.1 Sobic.002G273900 2 65649651 65652332 similar to Putative uncharacterized protein OJ1254_E07.2-1 https://phytozome.jgi.doe.gov/pz/portal.html#!gene?search=1&detail=1&method=5228&searchText=locusName:Sobic.002G273900
2.1 Sobic.002G274000 2 65657546 65661433 similar to Os09g0530800 protein https://phytozome.jgi.doe.gov/pz/portal.html#!gene?search=1&detail=1&method=5228&searchText=locusName:Sobic.002G274000
2.1 Sobic.002G274200 2 65662264 65669206 similar to Putative uncharacterized protein OJ1254_E07.7 https://phytozome.jgi.doe.gov/pz/portal.html#!gene?search=1&detail=1&method=5228&searchText=locusName:Sobic.002G274200
2.1 Sobic.002G274400 2 65677027 65680231 Predicted protein https://phytozome.jgi.doe.gov/pz/portal.html#!gene?search=1&detail=1&method=5228&searchText=locusName:Sobic.002G274400
2.1 Sobic.002G274700 2 65726175 65731322 similar to Glycosyl transferase family 8 protein-like https://phytozome.jgi.doe.gov/pz/portal.html#!gene?search=1&detail=1&method=5228&searchText=locusName:Sobic.002G274700
2.1 Sobic.002G274800 2 65732380 65734827 similar to Senescence-inducible chloroplast stay-green protein https://phytozome.jgi.doe.gov/pz/portal.html#!gene?search=1&detail=1&method=5228&searchText=locusName:Sobic.002G274800
2.1 Sobic.002G274900 2 65741223 65742559 similar to Os09g0532200 protein https://phytozome.jgi.doe.gov/pz/portal.html#!gene?search=1&detail=1&method=5228&searchText=locusName:Sobic.002G274900
2.1 Sobic.002G275000 2 65749358 65750225 Predicted protein Invariant - W&W https://phytozome.jgi.doe.gov/pz/portal.html#!gene?search=1&detail=1&method=5228&searchText=locusName:Sobic.002G275000
2.1 Sobic.002G275200 2 65771804 65774601 similar to PPR-protein-like https://phytozome.jgi.doe.gov/pz/portal.html#!gene?search=1&detail=1&method=5228&searchText=locusName:Sobic.002G275200
2.1 Sobic.002G275300 2 65775135 65783052 similar to Deoxyribodipyrimidine photolyase family protein-like https://phytozome.jgi.doe.gov/pz/portal.html#!gene?search=1&detail=1&method=5228&searchText=locusName:Sobic.002G275300
2.1 Sobic.002G275500 2 65790905 65801825 similar to MYB-like protein 2 https://phytozome.jgi.doe.gov/pz/portal.html#!gene?search=1&detail=1&method=5228&searchText=locusName:Sobic.002G275500
2.1 Sobic.002G275600 2 65802798 65816522 similar to BRCA1 C Terminus domain containing protein, expressed https://phytozome.jgi.doe.gov/pz/portal.html#!gene?search=1&detail=1&method=5228&searchText=locusName:Sobic.002G275600
2.1 Sobic.002G275700 2 65818621 65828284 similar to Putative uncharacterized protein https://phytozome.jgi.doe.gov/pz/portal.html#!gene?search=1&detail=1&method=5228&searchText=locusName:Sobic.002G275700
2.1 Sobic.002G275800 2 65828447 65829733 similar to Putative uncharacterized protein https://phytozome.jgi.doe.gov/pz/portal.html#!gene?search=1&detail=1&method=5228&searchText=locusName:Sobic.002G275800
2.1 Sobic.002G275900 2 65848036 65851354 similar to PTS protein-like https://phytozome.jgi.doe.gov/pz/portal.html#!gene?search=1&detail=1&method=5228&searchText=locusName:Sobic.002G275900
2.1 Sobic.002G276000 2 65852951 65854152 similar to Histone H2A Balancing (domestication) https://phytozome.jgi.doe.gov/pz/portal.html#!gene?search=1&detail=1&method=5228&searchText=locusName:Sobic.002G276000
2.1 Sobic.002G276100 2 65856969 65866226 similar to Lon protease homolog 1, mitochondrial precursor Balancing (domestication) https://phytozome.jgi.doe.gov/pz/portal.html#!gene?search=1&detail=1&method=5228&searchText=locusName:Sobic.002G276100
2.1 Sobic.002G276400 2 65878820 65885375 similar to Putative uncharacterized protein https://phytozome.jgi.doe.gov/pz/portal.html#!gene?search=1&detail=1&method=5228&searchText=locusName:Sobic.002G276400
2.1 Sobic.002G276600 2 65892502 65897134 similar to Endoglucanase 24 precursor https://phytozome.jgi.doe.gov/pz/portal.html#!gene?search=1&detail=1&method=5228&searchText=locusName:Sobic.002G276600
2.1 Sobic.002G273000 2 65599827 65604702 OsFBL7 - F-box domain and LRR containing protein, expressed https://phytozome.jgi.doe.gov/pz/portal.html#!gene?search=1&detail=1&method=5228&searchText=locusName:Sobic.002G273000
2.1 Sobic.002G274100 2 65661640 65661924 expressed protein https://phytozome.jgi.doe.gov/pz/portal.html#!gene?search=1&detail=1&method=5228&searchText=locusName:Sobic.002G274100
2.1 Sobic.002G274300 2 65665336 65666050 https://phytozome.jgi.doe.gov/pz/portal.html#!gene?search=1&detail=1&method=5228&searchText=locusName:Sobic.002G274300
2.1 Sobic.002G274500 2 65699054 65701432 LRP1, putative, expressed https://phytozome.jgi.doe.gov/pz/portal.html#!gene?search=1&detail=1&method=5228&searchText=locusName:Sobic.002G274500
2.1 Sobic.002G274600 2 65708348 65710678 glycosyl transferase family 8 protein, expressed https://phytozome.jgi.doe.gov/pz/portal.html#!gene?search=1&detail=1&method=5228&searchText=locusName:Sobic.002G274600
2.1 Sobic.002G275100 2 65760636 65766084 response regulator receiver domain containing protein, expressed https://phytozome.jgi.doe.gov/pz/portal.html#!gene?search=1&detail=1&method=5228&searchText=locusName:Sobic.002G275100
2.1 Sobic.002G275400 2 65781212 65782490 https://phytozome.jgi.doe.gov/pz/portal.html#!gene?search=1&detail=1&method=5228&searchText=locusName:Sobic.002G275400
2.1 Sobic.002G276200 2 65871942 65872708 https://phytozome.jgi.doe.gov/pz/portal.html#!gene?search=1&detail=1&method=5228&searchText=locusName:Sobic.002G276200
2.1 Sobic.002G276300 2 65873481 65878807 https://phytozome.jgi.doe.gov/pz/portal.html#!gene?search=1&detail=1&method=5228&searchText=locusName:Sobic.002G276300
2.1 Sobic.002G276500 2 65890704 65891564 HVA22, putative, expressed https://phytozome.jgi.doe.gov/pz/portal.html#!gene?search=1&detail=1&method=5228&searchText=locusName:Sobic.002G276500