QTL IDa | BTA | Breed | Traits (# QTLb) | Candidate variantsc | 50K SNPs | Variant with the most significant effect | |||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Total# | # with -log10(P) > 6 | # in TOP10 | Best rank | Total# | # with -log10(P) > 6 | # in TOP10 | Best rank | Position (pb) | ID | -log10(P) | Functional annotation | ||||
1 | 3 | MON | PC(1) | 8 | 0 | 4 | 1 | 18 | 0 | 6 | 2 | 14,889,296 | rs110992770 | 2.7 | KHCD4 upstream |
2 | 3 | HOL | PC(2) | 16 | 3 | 4 | 1 | 31 | 3 | 6 | 3 | 15,592,645 | rs134511693 | 66.6 | EFNA4 upstream/ADAM15 downstream |
3 | 3 | NOR | PC(1) | 9 | 4 | 6 | 1 | 15 | 2 | 4 | 3 | 15,558,071 | rs135107424 | 16.0 | Intergenic |
4 | 4 | NOR | PC(1) | 1 | 0 | 0 | 15 | 23 | 3 | 10 | 1 | 78,114,069 | rs42683912 | 10.6 | COA1 intron |
5 | 5 | MON | FC(1) | 2 | 0 | 2 | 5 | 22 | 0 | 8 | 1 | 86,753,605 | rs109647158 | 1.7 | SOX5 intron |
6 | 5 | HOL | PY(1) | 18 | 0 | 8 | 1 | 9 | 0 | 2 | 4 | 88,830,128 | rs136903701 | 5.5 | ABCC9 intron/downstream |
7 | 5 | MON | FC(3) | 37 | 17 | 10 | 1 | 51 | 3 | 0 | 16 | 93,945,738 | rs211210569 | 40.8 | MGST1 intron |
8 | 5 | HOL | FC(6) | 51 | 33 | 10 | 1 | 95 | 16 | 0 | 30 | 93,945,991 | rs208248675 | 120.3 | MGST1 intron |
8 | 5 | HOL | FY(1) | 31 | 26 | 10 | 1 | 3 | 0 | 0 | 29 | 93,945,738 | rs211210569 | 25.2 | MGST1 intron |
9 | 5 | NOR | FC(4) | 40 | 25 | 10 | 1 | 57 | 4 | 0 | 24 | 93,945,738 | rs211210569 | 26.8 | MGST1 intron |
10 | 5 | NOR | MY(1) | 16 | 0 | 8 | 1 | 4 | 0 | 2 | 2 | 112,398,982 | rs211569025 | 2.1 | Intergenic |
11 | 5 | MON | PC(3) | 22 | 9 | 7 | 1 | 75 | 10 | 3 | 2 | 117,972,265 | rs525880746 | 68.6 | GRAMD4 upstream |
12 | 5 | HOL | PC(1) | 5 | 1 | 1 | 1 | 32 | 1 | 9 | 2 | 118,244,695 | rs456403270 | 23.5 | TBC1D22A missense |
13 | 6 | HOL | FC(1) | 8 | 0 | 3 | 1 | 21 | 0 | 7 | 3 | 37,723,413 | rs136548039 | 2.9 | HERC5 intron |
13 | 6 | HOL | PC(1) | 6 | 0 | 3 | 3 | 13 | 0 | 7 | 1 | 38,063,313 | rs41622323 | 4.4 | PKD2 intron |
14 | 6 | HOL | PC(7) | 174 | 89 | 10 | 1 | 104 | 20 | 0 | 27 | 87,199,843 | rs383909572 | 56.0 | HSTN splice acceptor |
14 | 6 | HOL | PY(1) | 87 | 35 | 8 | 1 | 18 | 2 | 2 | 5 | 87,181,619 | rs43703011 | 14.6 | CSN2 missense |
15 | 6 | NOR | PC(8) | 192 | 99 | 10 | 1 | 158 | 23 | 0 | 33 | 87,296,809 | rs134776019 | 25.3 | Intergenic |
16 | 6 | MON | PC(10) | 190 | 92 | 9 | 1 | 164 | 29 | 1 | 2 | 87,296,809 | rs134776019 | 54.4 | Intergenic |
17 | 6 | MON | PC(1) | 10 | 0 | 2 | 4 | 30 | 0 | 8 | 1 | 92,623,916 | rs41256838 | 2.1 | CXCL10 5′UTR/ART3 intron |
18 | 6 | NOR | PC(1) | 8 | 3 | 6 | 1 | 23 | 3 | 4 | 2 | 92,561,862 | rs133076983 | 6.8 | SDAD1 missense |
19 | 11 | HOL | FC(1) | 31 | 30 | 10 | 1 | 4 | 1 | 0 | 28 | 103,300,548 | rs109982707 | 26.3 | PAEP upstream |
20 | 14 | NOR | FC(5) | 73 | 44 | 13 | 1 | 188 | 15 | 0 | 14 | 1,891,657 | rs109136389 | 137.6 | MROH1 intron |
20 | 14 | NOR | FY(1) | 39 | 24 | 20 | 1 | 3 | 3 | 1 | 2 | 1,808,145 | rs135258919 | 10.2 | HSF1 missense/DGAT1 downstream |
20 | 14 | NOR | PC(1) | 43 | 41 | 14 | 1 | 7 | 4 | 1 | 2 | 1,881,116 | rs132649038 | 26.4 | MROH1 intron/bta-mir-1839 downstream |
21 | 14 | MON | FC(7) | 61 | 22 | 9 | 1 | 224 | 27 | 1 | 10 | 1,795,176 | rs379230475 | 129.4 | DGAT1 5′UTR/SCRT1 downstream |
21 | 14 | MON | MY(1) | 17 | 15 | 10 | 1 | 13 | 5 | 0 | 12 | 1,795,176 | rs379230475 | 18.0 | DGAT1 5′UTR/SCRT1 downstream |
21 | 14 | MON | FY(1) | 17 | 10 | 10 | 1 | 13 | 0 | 0 | 11 | 1,639,005 | rs384162250 | 8.8 | Intergenic |
22 | 14 | HOL | FC(5) | 90 | 52 | 37 | 1 | 206 | 33 | 2 | 1 | 1,802,265 | rs109234250 | >300 | DGAT1 missense |
22 | 14 | HOL | MY(5) | 72 | 48 | 11 | 2 | 139 | 24 | 1 | 1 | 1,801,116 | rs109421300 | 108.1 | DGAT1 intron/HSF1 downstream |
22 | 14 | HOL | FY(6) | 90 | 50 | 10 | 1 | 206 | 26 | 0 | 19 | 1,739,885 | rs110825388 | 93.7 | CPSF1 intron/ADCK5 downstream |
22 | 14 | HOL | PY(2) | 53 | 45 | 11 | 2 | 30 | 8 | 1 | 1 | 1,801,116 | rs109421300 | 30.3 | DGAT1 intron |
22 | 14 | HOL | PC(3) | 62 | 48 | 13 | 1 | 64 | 18 | 0 | 20 | 1,724,688 | rs135458711 | 141.9 | SLC39A4 downstream/CPSF1 upstream |
23 | 14 | MON | FC(1) | 0 | 0 | 0 | 0 | 10 | 0 | 10 | 1 | 12,672,880 | rs42381926 | 1.6 | Intergenic |
24 | 14 | HOL | FC(3) | 1 | 1 | 1 | 3 | 27 | 10 | 9 | 1 | 67,443,766 | rs109007040 | 11.9 | VPS13B intron |
24 | 14 | HOL | MY(3) | 4 | 2 | 2 | 4 | 51 | 4 | 8 | 1 | 67,443,766 | rs109007040 | 6.2 | VPS13B intron |
24 | 14 | HOL | PC(5) | 5 | 3 | 2 | 4 | 90 | 23 | 8 | 1 | 67,443,766 | rs109007040 | 31.0 | VPS13B intron |
25 | 15 | HOL | PC(1) | 0 | 0 | 0 | 0 | 27 | 0 | 10 | 1 | 27,905,645 | rs110144962 | 2.5 | APOA4 downstream |
26 | 16 | MON | PC(1) | 1 | 1 | 1 | 1 | 13 | 0 | 9 | 2 | 60,692,234 | rs135698521 | 7.9 | Intergenic |
27 | 19 | HOL | FC(1) | 11 | 9 | 9 | 1 | 3 | 1 | 1 | 4 | 51,319,797 | rs41921161 | 16.6 | CCDC57 missense |
27 | 19 | HOL | FY(1) | 11 | 0 | 9 | 1 | 3 | 0 | 1 | 4 | 51,319,797 | rs41921161 | 5.9 | CCDC57 missense |
28 | 20 | HOL | FY(1) | 5 | 0 | 3 | 4 | 7 | 0 | 7 | 1 | 7,661,649 | rs110231369 | 0.5 | ARHGEF28 intron |
28 | 20 | HOL | PY(1) | 4 | 0 | 4 | 3 | 5 | 0 | 5 | 1 | 7,661,649 | rs110231369 | 0.8 | ARHGEF28 intron |
29 | 20 | HOL | PC(1) | 1 | 1 | 1 | 1 | 11 | 2 | 9 | 2 | 30,005,528 | rs43140727 | 11.3 | Intergenic |
30 | 20 | HOL | PC(3) | 103 | 92 | 10 | 1 | 48 | 12 | 0 | 50 | 31,909,478 | rs385640152 | 102.4 | GHR missense |
30 | 20 | HOL | MY(1) | 80 | 37 | 14 | 1 | 23 | 0 | 0 | 41 | 31,303,953 | rs474736745 | 9.9 | PAIP1 intron |
30 | 20 | HOL | FC(3) | 103 | 82 | 10 | 1 | 48 | 6 | 0 | 46 | 31,909,478 | rs385640152 | 54.5 | GHR missense |
31 | 22 | MON | PC(1) | 3 | 0 | 3 | 3 | 4 | 1 | 4 | 1 | 32,827,786 | rs41642478 | 1.0 | TAFA4 intron |
32 | 27 | MON | FC(1) | 8 | 4 | 6 | 1 | 7 | 2 | 4 | 5 | 36,209,319 | rs211250281 | 20.4 | GPAT4 upstream |
33 | 27 | HOL | FC(1) | 5 | 4 | 5 | 1 | 6 | 4 | 5 | 5 | 36,212,352 | rs208675276 | 33.3 | GPAT4 5′ UTR |
34 | 27 | NOR | FC(1) | 8 | 4 | 7 | 1 | 8 | 2 | 4 | 5 | 36,211,258 | rs209479876 | 14.7 | GPAT4 upstream |
35 | 29 | HOL | PC(1) | 4 | 2 | 3 | 1 | 15 | 1 | 7 | 2 | 9,608,833 | rs378017490 | 10.0 | PICALM upstream |
36. | 29 | HOL | PC(2) | 50 | 5 | 5 | 1 | 56 | 4 | 5 | 4 | 41,843,734 | rs208817293 | 15.9 | WDR74 intron/U2 downstream |