Obesity and Type-2 diabetes mellitus regarded chronic metabolic disease and main causes of infertility in women. obesity lead to increase of Leptin hormone level which synthesis by adipose cells and enterocytes and cause systemic hormonal imbalance. Ninety Iraqi women were enrolled as a samples in this study collected from Women's Hospital in Karbala City and teaching hospital and the women and children hospital of Al-Diwaniyah province from October 2020 to January 2021. Sixty infertility women were suffered from obesity and T2DM and 30 were apparently healthy considered as a control. Allele Specific molecular technique was used to detect the LEP rs7799039 genotypes and allele frequency. Study data to analyze by Chi square and odds Ratio and p-value test used to detect significance of the means. genotype result rs7799039 related with GG homozygous associated with obesity compared with diabetes (0 versus 40%; X2 =15, p-value = 0.01) and obesity compare with control (0 versus 26.66%; X2 =9.23, p-value = 0.03). result of rs7799039 related with GA heterozygous associated with obesity compared with diabetes (86.66 versus 40%; X2 =14.06, p-value = 0.0005), and obesity compare with control (73.33 versus 86.66%; X2 =1.66, p-value = 0.20). result of rs7799039 related with AA homozygous associated with obesity compared with control (13.33 versus 0 %; X2 =4.28, p-value = 0.03), and diabetes compare with control (20 versus 0%; X2 =6.66, p-value = 0.01). the result of this study concluded that rs7799039 revealed that GA heterozygous, GG and AA homozygous are associated of incidence infertility that suffered from diabetes and obesity in Iraqi patient women.