Hs1^Pro-1, conferring complete resistance to beet cyst nematode, had been cloned by positional cloning from beet. An EST: TC219197 was obtained by tBLASTn with Hs1^Pro-1 homolog in soybean EST database (http://tigrblast.tigr.org/tgi/), which had 1042 base pairs. A pair of primers was designed based one the sequence of TC219197 to amplify genomic DNA of soybean cultivar Wenfeng7, and obtained fragment with 1477 bp in length, which was 475bp longer than TC219197. ORF and domain prediction indicated that the amplicon had an exon with 1314bp length, flanked with 3′-UTR and 5′-UTR, and had Hs1pro-1_N and Hs1pro-1_C domain. Therefore, we named this gene as GmHs1^Pro-1. 15 domesticated soybean germplasm and 12 wild ones were used for sequence for this gene. A total of 11 polymorphic sites were found, with 1/134bp SNP frequency. Of the total, 9 polymorphic sites occurred in 1314-bp coding region, and 2 were found in 136-bp 3′-UTR. Although the number of domesticated soybean germplasm was larger than that of wild soybean materials, pi; and θ of wild soybean both were higher obviously than domesticated one, which suggested that wild soybean had greater DNA polymorphism than domesticated ones. We had developed 4 SNP markers and will use them to investigate their distribution in soybean germplasm and their relationship with resistance to soybean cyst nematode.