The photoperiod-temperature sensitive genic male sterile (PTSGMS) line in wheat is important for the utilization of heterosis. The wheat line, BAU3338, is an excellent PTSGMS material identified in the recent years. In this study, its PTSGMS genes were mapped using molecular markers, SSR and ISSR. The result of molecular analysis showed that the two PTSGMS loci were identified and designated as ptms1 and ptms2, respectively. In addition, the genetic effect analysis indicated that the locus effect of ptms1 was 2-3 times larger than that of ptms2.