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. 2017 Jan 27;17(1):5. doi: 10.1093/jisesa/iew094

Table 1.

SNPs significantly associated with virgin egg retention (P < 10 5). MAF is minor allele frequency, Del,  deletion, for non-synonymous SNPs, A55G is interpreted as a mutation that causes a change from alanine to glycine in the 55th position of the protein, SNPs downstream of the gene are denoted as “Down (position)”.

Chr Pos MAF Effect P-value Gene Class
X 22394286 0.384 −0.120 5.86E−07 StnA/B Del (78bp—intron)
X 22385304 0.333 −0.130 5.93E−07 StnA/B Intron
3L 9356607 0.180 −0.158 7.53E−07 Klp67A Nonsyn (S691N)
X 22386644 0.356 −0.121 1.08E−06 StnA/B Intron
2R 16443531 0.227 −0.143 1.32E−06 lms Up(833)
3L 1696552 0.218 −0.148 1.38E−06 CG7991 Intron
3L 9356604 0.191 −0.151 1.44E−06 Klp67A Nonsyn (T692S)
3L 9356609 0.171 −0.156 1.60E−06 Klp67A Syn
3R 25293837 0.165 −0.157 2.24E−06 Ptp99A Intron
3R 22722373 0.446 −0.105 2.56E−06 T48 Intron
3R 23759237 0.302 −0.124 3.95E−06 Mes-4 Intron
3R 16293867 0.140 −0.166 4.11E−06 mun Intron
X 11867221 0.253 −0.132 4.13E−06 cac Intron
X 3655147 0.144 −0.153 4.36E−06 tlk Intron
3L 12152503 0.130 −0.164 4.57E−06 CG9760 Syn.
X 22385502 0.366 −0.117 5.89E−06 StnA/B Intron
3R 24327835 0.193 −0.141 6.18E−06 Dhc98D Intron
X 22397621 0.364 −0.112 6.42E−06 StnA/B 5’ UTR
3R 16259969 0.056 −0.236 6.45E−06 mun Intron
3L 9356600 0.227 −0.123 6.70E−06 Klp67A Syn.
3L 16448208 0.216 −0.130 6.75E−06 CG33158 Intron
3R 9294054 0.057 −0.229 6.83E−06 NA NA
3R 25816726 0.112 −0.178 7.05E−06 Acph-1 Down (140)
X 3655346 0.148 −0.151 7.27E−06 tlk Intron
3R 23719399 0.250 −0.135 8.61E−06 CG34353 Intron
3R 6329823 0.229 0.137 8.66E−06 NA NA
3R 25816740 0.122 −0.167 9.23E−06 Acph-1 Down (126)
X 22382756 0.345 −0.112 9.34E−06 StnA/B 3’ UTR
3R 27115805 0.333 0.109 9.86E−06 NA NA