Apple (Malus × domestica Borkh.) has gametophytic self-incompatibility (S) controlled by the multi-allelic S-locus. In the present study, S-genotypes of 24 apple cultivars including newly released Korean cultivars and seven crabapple cultivars were identified using S-allele specific polymerase chain reaction analysis. Twelve different S-alleles (S₁, S₂, S₃, S₅, S₇, S₉, S₁₀, S₁₆, S₂₁, S₂₃, S₂₆, and S₂₉) from 31 apple and crabapple cultivars were identified using 23 S-allele specific primers. Among them, S₁ (41.7%), S₃ (58.3%), S₇ (29.2%), and S₉ (54.2%) S-alleles were found to be common in 24 apple cultivars. The newly released Korean cultivars ‘Arisoo’ and ‘Hwangok’ were genetyped as S3S7 and S3S9, respectively. S-genotypes information obtained from the present study will be useful to select proper pollinzers for stable production of apple fruit and to design cross of breeding programs.