The AUC of fetal hypospadias predicted by MS-AFP was 0.644 (95% CI: 0.550–0.737, p = 0.005), and the best cutoff value of MS-AFP for fetal hypospadias screening was 0.945 MoM, with a sensitivity of 73.9%, a specificity of 48.4%, and a Youden index of 0.223. This evidence concerns the gene AFP and hypospadias.