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Table 6 Intervals containing eQTL and QTL

From: Overlap between eQTL and QTL associated with production traits and fertility in dairy cattle

cell type trait chr start (bp) end (bp) eQTL gene topVar annotation p_eQTL p_cor
milk milk 29 42,610,883 42,860,883 ENSBTAG00000037645 42,829,338 5′ UTR MARK2 5.6 × 10−06 6.3 × 10− 06
milk fat 18 1,601,923 1,851,923 FUK 1,840,070 intron AARS 5.1 × 10− 06 2.5 × 10−07
milk prot% 18 1,550,757 1,800,757 FUK 1,666,278 intron COG4 3.8 × 10−11 8.1 × 10−15
WBC milk 3 25,131,248 25,381,248 SPAG17 25,150,562 intron SPAG17 1.2 × 10−06 5.5 × 10−12
WBC milk 5 104,173,293 104,423,293 NCAPD2 104,278,115 dns MRPL51 4.1 × 10−20 4.0 × 10−07
WBC milk 18 18,190,766 18,440,766 BRD7 18,301,292 intron ZNF423 8.9 × 10−06 2.4 × 10−10
WBC milk 23 31,068,838 31,318,838 BTN1A1 31,095,692 intergenic 6.3 × 10−08 1.5 × 10−06
WBC milk 26 21,889,732 22,139,732 TWNK 21,901,063 ups LBX1 9.7 × 10−07 3.3 × 10−07
WBC fat 14 2,753,849 3,003,849 FAM83H 2,755,467 synon LY6K 2.1 × 10−06 9.7 × 10−06
WBC fat 18 1,601,923 1,851,923 FUK 1,612,928 ups IL34 & dns SF3B3 2.6 × 10−07 8.6 × 10−09
WBC fat 18 18,190,766 18,440,766 BRD7 18,301,292 intron ZNF423 8.9 × 10−06 3.1 × 10−12
WBC fat 23 9,700,270 9,950,270 C6orf222 9,728,266 ups CLPS 1.3 × 10−07 2.9 × 10−06
WBC fat 26 21,139,834 21,389,834 TWNK 21,142,651 intron SCD 5.4 × 10−06 5.3 × 10− 06
WBC fat 26 21,889,732 22,139,732 TWNK 21,893,176 dns LBX1 1.5 × 10−07 2.6 × 10−06
WBC prot 11 104,113,835 104,363,835 ABO 104,225,654 intergenic 3.8 × 10−07 5.9 × 10−06
WBC prot 18 18,190,766 18,440,766 BRD7 18,301,292 intron ZNF423 8.9 × 10−06 9.3 × 10−11
WBC fat% 5 75,536,412 75,786,412 ENSBTAG00000012192 75,596,191 intergenic 9.6 × 10−07 4.5 × 10−06
WBC fat% 5 104,120,905 104,370,905 NCAPD2 104,139,091 intron ZNF384 3.6 × 10−07 2.2 × 10−06
WBC fat% 26 22,005,004 22,255,004 TWNK 22,005,517 intron BTRC 5.4 × 10−07 1.9 × 10− 07
WBC prot% 5 24,074,711 24,324,711 CEP83 24,074,711 intron PLXNC1 3.2 × 10−06 1.8 × 10−12
WBC prot% 11 104,168,845 104,418,845 ABO 104,225,654 intergenic 3.8 × 10−07 4.2 × 10−06
WBC prot% 14 2,132,257 2,382,257 MAPK15 2,236,999 splice MAPK15 4.7 × 10−06 2.2 × 10− 06
WBC prot% 18 1,550,757 1,800,757 FUK 1,673,395 intron COG4 1.1 × 10−39 7.0 × 10−38
WBC prot% 18 2,187,925 2,437,925 FUK 2,200,039 intron FA2H 3.4 × 10−06 3.6 × 10−07
WBC prot% 26 24,899,228 25,149,228 ENSBTAG00000038540 25,027,259 intron CFAP43 1.3 × 10−06 2.3 × 10−08
WBC fert 6 38,538,611 38,788,611 FAM184B 38,585,743 intron LAP3 9.5 × 10−07 9.8 × 10−06
WBC fert 10 37,985,065 38,235,065 CDAN1 38,017,802 intergenic 3.0 × 10−07 2.0 × 10−08
WBC fert 21 48,591,579 48,841,579 SSTR1 48,641,167 intergenic 6.9 × 10−06 1.8 × 10−06
  1. Chr chromosome, topVar position in basepair (pb) of variant with strongest association with eQTL and localGEBV, annotation functional annotation of topVar, dns downstream, ups upstream, p_eQTL p-value eQTL analysis, p_cor p-value correlation local GEBV and gene expression, WBC white blood cells