Anim Biosci > Volume 31(3); 2018 > Article |
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SNP | Chr | Position | −log10 (p-value) | Gene1) | Reported carcass QTL | β (kg) | Vg | MAF | d0 | d1 | d2 |
---|---|---|---|---|---|---|---|---|---|---|---|
Hapmap60145-rs29013637 | 24 | 27381101 | 4.55 | - | 26.6–30.0 Mb | −22.57 | 0.090 | 0.43 | 41 | 105 | 74 |
ARS-BFGL-NGS-28234 | 14 | 21343649 | 4.30 | - | 21.1–21.1 Mb | 43.45 | 0.084 | 0.07 | 1 | 30 | 189 |
ARS-BFGL-NGS-21717 | 5 | 117102295 | 4.09 | LOC101903200 | - | −19.24 | 0.080 | 0.46 | 44 | 115 | 61 |
ARS-BFGL-NGS-7347 | 20 | 67090770 | 3.95 | - | - | 20.28 | 0.077 | 0.50 | 54 | 112 | 54 |
BovineHD1100008236 | 11 | 27645835 | 3.71 | - | - | −25.14 | 0.072 | 0.28 | 18 | 88 | 112 |
BovineHD0200020296 | 2 | 70647552 | 3.58 | - | 62.2–75.6 Mb | −32.19 | 0.069 | 0.08 | 0 | 37 | 183 |
BTB-00874898 | 28 | 6575192 | 3.57 | - | 4.3–8.7 Mb | −32.10 | 0.069 | 0.09 | 2 | 37 | 181 |
Hapmap51939-BTA-21630 | 12 | 36708993 | 3.53 | PARP4 | - | −22.74 | 0.068 | 0.20 | 13 | 63 | 142 |
ARS-BFGL-NGS-22647 | 3 | 1779182 | 3.37 | GPA33 | - | −34.34 | 0.064 | 0.07 | 2 | 26 | 191 |
BTB-00646159 | 16 | 52211744 | 3.30 | NADK | 50.0–51.0 Mb | 18.63 | 0.063 | 0.43 | 37 | 117 | 66 |
BovineHD0900009902 | 9 | 36090095 | 3.28 | - | - | 19.25 | 0.063 | 0.46 | 41 | 119 | 60 |
ARS-BFGL-NGS-6936 | 14 | 34148235 | 3.17 | PREX2 | 28.1–46.8 Mb | 30.88 | 0.060 | 0.10 | 1 | 42 | 177 |
BTB-02072074 | 21 | 38226290 | 3.12 | - | - | 22.19 | 0.059 | 0.39 | 28 | 116 | 75 |
BovineHD0600013305 | 6 | 48433095 | 3.10 | - | 45.9–53.1 Mb | −18.10 | 0.059 | 0.37 | 36 | 88 | 95 |
BovineHD0900007660 | 9 | 28282574 | 3.06 | - | - | −16.47 | 0.058 | 0.36 | 25 | 108 | 87 |
BTA-54082-no-rs | 22 | 32257185 | 3.01 | FRMD4B | 28.5–45.7 Mb | −21.53 | 0.057 | 0.19 | 8 | 68 | 143 |
BovineHD0100034972 | 1 | 123851563 | 3.01 | - | 26.6–30.0 Mb | −22.76 | 0.057 | 0.18 | 7 | 66 | 146 |
Marker | Chr | Position | Gene1) | Reported carcass QTL | −log10 (p-value) | β (kg) | Vg | MAF | d0 | d1 | d2 |
---|---|---|---|---|---|---|---|---|---|---|---|
ARS-BFGL-NGS-28234 | 14 | 21343649 | - | 21.9–29.3 Mb | 4.86 | 48.51 | 0.096 | 0.07 | 1 | 30 | 189 |
BTB-02072074 | 21 | 38226290 | - | - | 4.02 | 33.88 | 0.078 | 0.39 | 28 | 116 | 75 |
BovineHD2600007390 | 26 | 27840203 | SORCS1 | - | 3.83 | 25.69 | 0.074 | 0.28 | 16 | 89 | 115 |
ARS-BFGL-NGS-22647 | 3 | 1779182 | GPA33 | - | 3.78 | −40.34 | 0.073 | 0.07 | 2 | 26 | 191 |
BovineHD0200020296 | 2 | 70647552 | - | 62.2–75.6 Mb | 3.58 | −32.19 | 0.069 | 0.08 | 0 | 37 | 183 |
ARS-BFGL-NGS-7347 | 20 | 67090770 | - | - | 3.51 | 29.63 | 0.067 | 0.5 | 54 | 112 | 54 |
ARS-BFGL-NGS-6936 | 14 | 34148235 | PREX2 | 28.1–46.8 Mb | 3.49 | 33.68 | 0.067 | 0.1 | 1 | 42 | 177 |
BovineHD0600019726 | 6 | 70908736 | - | 53.1–72.2 Mb | 3.48 | 28.81 | 0.067 | 0.45 | 40 | 119 | 61 |
BovineHD2000011491 | 20 | 40180680 | ADAMTS12 | - | 3.45 | 29.05 | 0.066 | 0.41 | 38 | 104 | 78 |
ARS-BFGL-NGS-110665 | 22 | 33423142 | FAM19A1 | 28.5–45.7 Mb | 3.42 | 26.03 | 0.065 | 0.42 | 35 | 113 | 72 |
BTA-26576-no-rs | 16 | 67703949 | SWT1 | - | 3.36 | 29.07 | 0.064 | 0.17 | 8 | 59 | 153 |
ARS-BFGL-NGS-111513 | 1 | 125725305 | - | - | 3.27 | 26.03 | 0.062 | 0.49 | 52 | 103 | 56 |
BovineHD0400002851 | 4 | 9215747 | AKAP9 | 0.8–22.4 Mb | 3.22 | 25.16 | 0.061 | 0.29 | 15 | 95 | 109 |
Hapmap29357-BTA-147904 | 17 | 32009576 | - | 30.1–32.2 Mb | 3.17 | −25.99 | 0.06 | 0.27 | 25 | 68 | 127 |
BTB-00874898 | 28 | 6575192 | - | 4.3–8.7 Mb | 3.15 | −32.21 | 0.06 | 0.09 | 2 | 37 | 181 |
BovineHD2200017653 | 22 | 60652435 | - | - | 3.01 | −26.29 | 0.057 | 0.48 | 53 | 103 | 64 |
SNP, single nucleotide polymorphism; QTL, quantitative trait loci; β, the allele substitution effect; Vg, the proportion of variance explained by each SNP; MAF, minor allele frequency; d0, d1, d2, the number of individuals with 2, 1 and copies of the minor allele.
1) SORCS1, sortilin related VPS10 domain containing receptor 1; GPA33, glycoprotein A33; PREX2, phosphatidylinositol-3,4,5-trisphosphate dependent Rac exchange factor 2; ADAMTS12, ADAM metallopeptidase with thrombospondin type 1 motif 12; FAM19A1, family with sequence similarity 19 member A1; SWT1, RNA endoribonuclease homolog; AKAP9, A-kinase anchoring protein 9.
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