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Table 3 Contributions of four associated SNPs to egg weights at different ages

From: Genome-wide association study dissects genetic architecture underlying longitudinal egg weights in chickens

SNP rs14916609 rs314058619 rs316497033 rs14491030
Chromosome GGA1 GGA1 GGA3 GGA4
Position (bp)a 168,456,799 169,930,974 23,254,004 75,486,534
EA/AA G/A T/G A/G G/A
EAF 0.41 0.47 0.21 0.06
FEW beta (SE)b −0.201 (0.051) 0.095 (0.047) −0.129 (0.055) 0.366 (0.086)
CPV (%)c 1.92 0.30 0.55 1.32
EW32 beta (SE) −0.284 (0.051) 0.204 (0.046) −0.132 (0.054) 0.601 (0.082)
CPV (%) 3.75 2.10 0.57 3.88
EW36 beta (SE) −0.259 (0.053) 0.135 (0.047) −0.200 (0.055) 0.499 (0.083)
CPV (%) 2.92 0.82 1.42 2.50
EW40 beta (SE) −0.269 (0.051) 0.167 (0.046) −0.204 (0.054) 0.567 (0.081)
CPV (%) 3.45 1.49 1.68 3.51
EW44 beta (SE) −0.283 (0.053) 0.189 (0.047) −0.195 (0.056) 0.503 (0.085)
CPV (%) 3.62 1.73 1.39 2.74
EW48 beta (SE) −0.266 (0.057) 0.270 (0.051) −0.190 (0.061) 0.455 (0.092)
CPV (%) 3.00 3.43 1.22 2.03
EW52 beta (SE) −0.303 (0.056) 0.258 (0.050) −0.277 (0.060) 0.549 (0.092)
CPV (%) 4.02 3.13 2.65 3.09
EW56 beta (SE) −0.283 (0.054) 0.271 (0.048) −0.317 (0.057) 0.453 (0.087)
CPV (%) 3.63 3.54 3.38 2.12
EW60 beta (SE) −0.286 (0.053) 0.241 (0.048) −0.272 (0.057) 0.469 (0.085)
CPV (%) 3.81 2.89 2.53 2.31
  1. EA effect allele (minor allele), AA alternative allele (major allele), EAF effect allele frequency, FEW first egg weight, EW32, EW36, EW40, EW44, EW48, EW52, EW56, EW60 egg weight per four weeks from 32 to 60 week of age
  2. aAlleles are indexed to the forward strand of Galgal4 assembly
  3. bEstimated allelic substitution effect per copy of the effect allele (EA) based on inverse-normal transformed scale under an additive model, expressed in SD unit/allele; SE = standard error of the beta
  4. cCPV = contribution to phenotypic variance (%)