Gastropods are one of the most diverse groups of animals, in form, habit, and habitat. Till now they are the largest group of molluscs. The present study was aimed to evaluate the genetic variability among three gastropods species; Neverita josephinia, Hexaplex trunculus and Murex altispira using molecular marker start codon targeted (SCoT) and Sodium dodecyl sulfate polyacrylamide gel electrophoresis (SDS-PAGE). A total of ten SCoT primers produced 115 amplicons, their size ranged from 120 to 1500 bp and the percentage of polymorphism ranged from 20% to 78%. The results of the study revealed that Neverita josephina and Hexaplex trunculus have higher genetic similarity 76% while Hexaplex trunculus and Murex altispira exhibited lower genetic similarity 70%. The protein analysis by SDS-PAGE Produced 23 bands of molecular weight ranging from 8 to 149 KDa with polymorphism 9%. Considering all the gained data, it is evident that molecular detection of SCoT and SDS-PAGE are suitable tools in assessing genetic variation and relationships among gastropods species.