In all migraine groups, we found that only MIDAS and BDI scores were significantly associated with a variant in the intron region of CDH4 rs78063755 (P-value = 0.03, 0.048; OR = 1.05, 0.98; 95% confidence interval 1.02–1.08, 0.96–0.99, respectively). This evidence concerns the gene CDH4 and migraine disorder.