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Table 4 SNP association analysis in bull population (andrological traits)

From: Non-synonymous mutations mapped to chromosome X associated with andrological and growth traits in beef cattle

Trait Gene where the SNP is located p-value Allele Effect SE %Va
PNS PLAG1 0.439 G 0.0079 0.0102 0.24
  TEKT4 0.355 A 0.0097 0.0105 0.28
  LOC100138021 0.011 G 0.0209 0.0082 2.73
  CENPI 0.017 A 0.0180 0.0075 1.93
  TAF7L 0.037 T 0.0173 0.0082 2.31
  NXF2 0.159 C 0.0120 0.0086 0.82
  CYLC1 0.976 A 0.0003 0.0920 0.01
  TEX11_38 1.000 A 0.0000 0.0080 0.00
  AR 0.217 A 0.0110 0.0088 0.45
  UXT 0.313 T 0.0116 0.0114 0.43
  SPACA5 0.670 T 0.0035 0.0084 0.03
SC24 PLAG1 0.144 G 0.1818 0.1235 0.31
  TEKT4 0.307 A 0.1296 0.1263 0.06
  LOC100138021 <0.001 G 0.5966 0.0968 2.13
  CENPI <0.001 A 0.3729 0.0898 0.74
  TAF7L <0.001 T 0.6310 0.0980 2.42
  NXF2 <0.001 C 0.4086 0.1022 0.65
  CYLC1 <0.001 A 0.7580 0.1040 2.83
  TEX11_38 <0.001 A 0.9929 0.0931 8.23
  AR <0.001 A 0.8614 0.1037 4.59
  UXT <0.001 T 0.7374 0.1385 1.74
  SPACA5 0.088 T 0.1760 0.1024 0.17
SC18 PLAG1 0.053 G 0.2583 0.1326 0.62
  TEKT4 0.520 A 0.0975 0.1357 0.03
  LOC100138021 <0.001 G 0.8548 0.1025 4.12
  CENPI <0.001 A 0.6401 0.0953 2.32
  TAF7L <0.001 T 0.9212 0.1023 4.88
  NXF2 <0.001 C 0.5537 0.1095 1.10
  CYLC1 <0.001 A 0.8290 0.1176 2.93
  TEX11_38 <0.001 A 1.0550 0.0993 9.02
  AR <0.001 A 0.8104 0.1123 3.83
  UXT <0.001 T 0.6638 0.1497 1.20
  SPACA5 0.004 T 0.3210 0.1096 0.59
SC12 PLAG1 0.035 G 0.2899 0.1363 1.13
  TEKT4 0.110 A 0.2260 0.1405 0.35
  LOC100138021 <0.001 G 0.9900 0.1041 9.23
  CENPI <0.001 A 0.6842 0.0977 4.35
  TAF7L <0.001 T 1.0460 0.1040 10.66
  NXF2 <0.001 C 0.6755 0.1123 3.12
  CYLC1 <0.001 A 0.8582 0.1197 4.96
  TEX11_38 <0.001 A 1.0540 0.1030 13.47
  AR <0.001 A 0.8153 0.1156 5.94
  UXT <0.001 T 0.5491 0.1535 1.16
  SPACA5 0.062 T 0.2126 0.1130 0.37
  1. Significance (p-value), allelic substitution effect (effect) for the named allele of each SNP, its standard error (SE) and the percentage of additive genetic variance (%Va) explained by the genotypes of each SNP on production of normal sperm at 24 months (PNS), scrotal circumference at 12 months (SC12), at 18 months (SC18) and at 24 months of age (SC24). Significantly associated <0.001 are highlighted in bold. The p-values are uncorrected.
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