Sequencing of SNPs and CpG dinucleotides around the target SNPs were investigated by bisulfite treatment of gDNA, FLDAS-PCR and pyrosequencing. Five SNPs (rs220028, rs737380, rs2279533, rs760087, rs2074399) located on five imprinted genes (SNRPN, SIM2, ZNF215, COL9A3, EVX1) were chosen for study. AQ primers were designed by PyroMark Assay design software; FLDAS-PCR primers of converted DNA were designed by primer premier and Oligo software. The evaluation of FLDAS-PCR was performed on QIAxcel DNA/RNA automatic system. Pyrosequencing was performed on PyroMark Q96 ID system. The frequencies were 0.55:0.45 at rs220028, 0.64:0.36 at rs737380, 0.53:0.47 at rs2279533, 0.45:0.55 at rs760087 and 0.62:0.38 at rs2074399, respectively. The parental origin of alleles can be determined by the methylation status at loci of rs220028, rs760087 and rs2074399. And hypermethylated or hypomethylated CpGs in either parental allele consistent with known expression manner of each gene was studied. Adopting technologies of FLDAS-PCR and pyrosequencing is feasible and simple to study parent-of-origin SNPs.