Genes Under QTL for QLFAR3.16 (v1.4)


QTL Info

Version QTL Name Linkage Group bp_start bp_end Description
1.4 QLFAR3.16 3 61342257 61593908 Leaf appearance rate_leaf number increasing rate at base temperature (Tb)

 

Genes Under QTL (total genes found: 36)

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
1.4 Sb03g032940 3 61339085 61344728 similar to Os01g0716800 protein Balancing (improvement) https://phytozome.jgi.doe.gov/pz/portal.html#!gene?search=1&detail=1&method=5228&searchText=locusName:Sb03g032940
1.4 Sb03g032950 3 61345815 61349671 similar to Choline kinase https://phytozome.jgi.doe.gov/pz/portal.html#!gene?search=1&detail=1&method=5228&searchText=locusName:Sb03g032950
1.4 Sb03g032960 3 61360835 61363952 weakly similar to Putative uncharacterized protein Invariant: cultivated and wild https://phytozome.jgi.doe.gov/pz/portal.html#!gene?search=1&detail=1&method=5228&searchText=locusName:Sb03g032960
1.4 Sb03g032980 3 61373122 61378832 similar to Alliin lyase-like https://phytozome.jgi.doe.gov/pz/portal.html#!gene?search=1&detail=1&method=5228&searchText=locusName:Sb03g032980
1.4 Sb03g032990 3 61397965 61401645 similar to Brassinosteroid-insensitive 1 https://phytozome.jgi.doe.gov/pz/portal.html#!gene?search=1&detail=1&method=5228&searchText=locusName:Sb03g032990
1.4 Sb03g033000 3 61418162 61418533 similar to Os01g0718500 protein https://phytozome.jgi.doe.gov/pz/portal.html#!gene?search=1&detail=1&method=5228&searchText=locusName:Sb03g033000
1.4 Sb03g033010 3 61427858 61430636 similar to Putative uncharacterized protein Purifying (Domestication/Improvement) https://phytozome.jgi.doe.gov/pz/portal.html#!gene?search=1&detail=1&method=5228&searchText=locusName:Sb03g033010
1.4 Sb03g033020 3 61434421 61435710 similar to 6b-interacting protein 1-like https://phytozome.jgi.doe.gov/pz/portal.html#!gene?search=1&detail=1&method=5228&searchText=locusName:Sb03g033020
1.4 Sb03g033030 3 61445655 61447691 weakly similar to Os01g0719000 protein https://phytozome.jgi.doe.gov/pz/portal.html#!gene?search=1&detail=1&method=5228&searchText=locusName:Sb03g033030
1.4 Sb03g033040 3 61449283 61453211 similar to Zinc finger protein https://phytozome.jgi.doe.gov/pz/portal.html#!gene?search=1&detail=1&method=5228&searchText=locusName:Sb03g033040
1.4 Sb03g033045 3 61471231 61476194 similar to Putative uncharacterized protein https://phytozome.jgi.doe.gov/pz/portal.html#!gene?search=1&detail=1&method=5228&searchText=locusName:Sb03g033045
1.4 Sb03g033050 3 61484702 61487386 similar to Putative uncharacterized protein Balancing (domestication) https://phytozome.jgi.doe.gov/pz/portal.html#!gene?search=1&detail=1&method=5228&searchText=locusName:Sb03g033050
1.4 Sb03g033060 3 61492903 61494315 similar to Lipase class 3-like https://phytozome.jgi.doe.gov/pz/portal.html#!gene?search=1&detail=1&method=5228&searchText=locusName:Sb03g033060
1.4 Sb03g033070 3 61495007 61496050 similar to Putative uncharacterized protein https://phytozome.jgi.doe.gov/pz/portal.html#!gene?search=1&detail=1&method=5228&searchText=locusName:Sb03g033070
1.4 Sb03g033075 3 61497763 61499106 similar to Chloroplast nucleoid DNA-binding protein cnd41-like Invariant: cultivated https://phytozome.jgi.doe.gov/pz/portal.html#!gene?search=1&detail=1&method=5228&searchText=locusName:Sb03g033075
1.4 Sb03g033080 3 61499895 61501894 similar to Putative uncharacterized protein Purifying (domestication) https://phytozome.jgi.doe.gov/pz/portal.html#!gene?search=1&detail=1&method=5228&searchText=locusName:Sb03g033080
1.4 Sb03g033090 3 61502724 61505479 similar to Putative uncharacterized protein Purifying (domestication) https://phytozome.jgi.doe.gov/pz/portal.html#!gene?search=1&detail=1&method=5228&searchText=locusName:Sb03g033090
1.4 Sb03g033100 3 61507403 61508691 similar to Acid phosphatase Purifying (domestication) https://phytozome.jgi.doe.gov/pz/portal.html#!gene?search=1&detail=1&method=5228&searchText=locusName:Sb03g033100
1.4 Sb03g033110 3 61516339 61516704 similar to Chlorophyll a-b binding protein 1, chloroplast precursor Balancing (domestication) https://phytozome.jgi.doe.gov/pz/portal.html#!gene?search=1&detail=1&method=5228&searchText=locusName:Sb03g033110
1.4 Sb03g033120 3 61517441 61518721 similar to Satase isoform I https://phytozome.jgi.doe.gov/pz/portal.html#!gene?search=1&detail=1&method=5228&searchText=locusName:Sb03g033120
1.4 Sb03g033130 3 61524647 61526173 weakly similar to Fusarium resistance protein I2C-5-like https://phytozome.jgi.doe.gov/pz/portal.html#!gene?search=1&detail=1&method=5228&searchText=locusName:Sb03g033130
1.4 Sb03g033140 3 61526953 61529811 similar to Putative uncharacterized protein https://phytozome.jgi.doe.gov/pz/portal.html#!gene?search=1&detail=1&method=5228&searchText=locusName:Sb03g033140
1.4 Sb03g033150 3 61533079 61538078 similar to UDP-acetylglucosamine acyltransferase-like https://phytozome.jgi.doe.gov/pz/portal.html#!gene?search=1&detail=1&method=5228&searchText=locusName:Sb03g033150
1.4 Sb03g033160 3 61547659 61549352 similar to Blind-like https://phytozome.jgi.doe.gov/pz/portal.html#!gene?search=1&detail=1&method=5228&searchText=locusName:Sb03g033160
1.4 Sb03g033170 3 61552305 61553189 weakly similar to Putative uncharacterized protein Invariant - W&W https://phytozome.jgi.doe.gov/pz/portal.html#!gene?search=1&detail=1&method=5228&searchText=locusName:Sb03g033170
1.4 Sb03g033190 3 61559815 61564886 similar to Protein kinase ZmMEK1 Balancing (domestication) https://phytozome.jgi.doe.gov/pz/portal.html#!gene?search=1&detail=1&method=5228&searchText=locusName:Sb03g033190
1.4 Sb03g033200 3 61567345 61569573 similar to Hexokinase-2 https://phytozome.jgi.doe.gov/pz/portal.html#!gene?search=1&detail=1&method=5228&searchText=locusName:Sb03g033200
1.4 Sb03g033210 3 61571621 61574959 similar to Putative uncharacterized protein https://phytozome.jgi.doe.gov/pz/portal.html#!gene?search=1&detail=1&method=5228&searchText=locusName:Sb03g033210
1.4 Sb03g033220 3 61576052 61578029 similar to Senescence/dehydration-associated protein-related (ERD7)-like https://phytozome.jgi.doe.gov/pz/portal.html#!gene?search=1&detail=1&method=5228&searchText=locusName:Sb03g033220
1.4 Sb03g033230 3 61578165 61579993 similar to 40S ribosomal protein S24 https://phytozome.jgi.doe.gov/pz/portal.html#!gene?search=1&detail=1&method=5228&searchText=locusName:Sb03g033230
1.4 Sb03g033240 3 61581185 61590238 similar to Putative uncharacterized protein Balancing (improvement/domestication) https://phytozome.jgi.doe.gov/pz/portal.html#!gene?search=1&detail=1&method=5228&searchText=locusName:Sb03g033240
1.4 Sb03g032965 3 61367073 61367237 Predicted protein Invariant: cultivated and wild https://phytozome.jgi.doe.gov/pz/portal.html#!gene?search=1&detail=1&method=5228&searchText=locusName:Sb03g032965
1.4 Sb03g032970 3 61368507 61369615 Predicted protein Invariant: cultivated and wild https://phytozome.jgi.doe.gov/pz/portal.html#!gene?search=1&detail=1&method=5228&searchText=locusName:Sb03g032970
1.4 Sb03g033145 3 61529879 61530007 Predicted protein Invariant: cultivated https://phytozome.jgi.doe.gov/pz/portal.html#!gene?search=1&detail=1&method=5228&searchText=locusName:Sb03g033145
1.4 Sb03g033175 3 61556436 61557044 Predicted protein https://phytozome.jgi.doe.gov/pz/portal.html#!gene?search=1&detail=1&method=5228&searchText=locusName:Sb03g033175
1.4 Sb03g033180 3 61557788 61558456 similar to Putative uncharacterized protein https://phytozome.jgi.doe.gov/pz/portal.html#!gene?search=1&detail=1&method=5228&searchText=locusName:Sb03g033180