Tomato (Lycopersicon esculentum Mill.) is considered the major and important globally vegetable crops especially in Egypt. Tissue culture techniques have facilitated the induction of mutant which helps in crop improvement. The mutation induction in vegetative crops through tissue culture may be the optimal method to improve these crops. Tomato explants of Idkawy Egyptian cultivar were cultured in vitro on MS medium supplemented with 0.2 mg/L BAP. The resulted plantlets were irradiated with different gamma radiation doses (50, 100, 150, 200 or 250 Gy) and the survival and mean of shoot length decreased as gamma radiation doses increased. The survival percentages of irradiated plantlets were ranged from 78.75% with 50 Gy dose to 18.75% with 250 Gy dose, while the shoot length values were decreased by a rate of 2.71 cm for dose 50 Gy and 1.2 cm for 250 Gy dose. The ten SCoT primers amplified a total of 114 amplicons with a range from 4 with SCoT-4 primer to 18 amplicons with SCoT-5  primer with an average of 11.4 amplicons per primer, The radiation specific markers were ranged from one fragment with SCoT-1 and SCoT-2 primers, SCoT- 5 two fragments with primer to five fragments with SCoT-3 and SCoT-33 primers.