Although there is low precipitation in Kazakhstan, rice is grown in regions serviced by irrigation canals. And breeding has begun in order to reduce the cost of importing glutinous rice. To develop glutinous rice cultivars efficiently, we need information on the haplotypes of Wx and Alk genes that affect eating quality. We investigated the haplotypes and amylopectin chain-length distribution in the first glutinous rice breeding lines developed in Kazakhstan. Such information could be useful to other countries starting glutinous rice breeding using parents possessing variation in Wx and Alk haplotypes.