Lentil (Lens culinaris Medik.) is one of the important legumes and cheaper source of protein in Bangladesh that displays great biological diversity. Isozyme, one of the most important protein markers to detect genetic polymorphism in lentil, whereas we considered thirteen-isozyme in six varieties viz., BARI masur-1, BARI masur-2, BARI masur-3, BARI masur-4, BARI masur-5 and BARI masur-6. The highest polymorphism was found in tyrosinase isozyme system. UPGMA analysis revealed that the highest similarity between BARI masur-5 and BARI masur-6 whereas, the highest genetic distance between BARI masur-1 and BARI masur-5 reflecting higher intervarietal variation. Principal component analysis (PCA) also revealed the similar results that of unweighted pair group method with arithmetic mean (UPGMA). The first, second and third PCs contributed 81.58%, 11.19% and 4.94% variation respectively, with cumulative variation of the first three PCs was 75.45%. Consequently, Isozyme could clearly assed the genetic diversity at intervarietal levels and these two varieties can be considered as valuable gene resources for future breeding and conservation programs.