Abstarct: In this research genetic diversity of 45 genotypes of pistachios including 20 male genotypes and 20 selected genotypes with five commercial postnodes from seed collection in Damghan Post Research Station were evaluated using morphologica phenological and also two markers of ISSR and RAPD. The 10 ISSR molecular markers produced a total of 227 bands all of which represented 100% polymorphism the mean number of bands of polymorphism was 22.7 bands for each marker. The highest resolution of the gene was UBC888 with 14.71 Rp. 10 of the RAPD 213 bands were generated of which 205 were multiform. the average number of polymorphic bands for each marker was 20.5 bands and 95.9% polypeptides. The BD12 indicator had the highest RP of 13.64. the coefficient of correlation between them was calculated to determine the relationships between the attributes. The results showed that genotypes were studied in some traits such as 100 seed weight and fruit length, osteoporosis, waterlogging, flowering date, flowering length, fruit harvesting and Also dimensional traits of leaf and length of branch of this year showed variability with variance and high coefficient of variation. FG18 genotype was the highest dry pistachio (128.8g) and FG3 (51g) and male genotype (MG20). The longest flowering period (11 days) was introduced to superior genotypes. Correlation coefficient between traits was significant and significant between many morphological data especially quantitative characteristics. The cluster analysis by Ward method and the analysis of the main components from the first three components in a total of 52.45%, baxsed on morphological data could explain the variation between two groups of female genotypes and commercial cultivars and show a good separation of female genotypes. The genotypic grouping using cluster analysis using UPGMA method was able to isolate all three groups of male and female genotypes and commercial cultivars in six groups so that commercial cultivars other than Akbari and Kheluchuchi cultivars were more observed among male genotypes group.