Two field experiments was conducted during the summer seasons of 2017 and 2018 to evaluate and identify five teosinte genotypes. A total of morphological characterization depends on stem anthocyanin coloration of sheath of the first leaf (ACS), shape of tip of the first leaf (ShT), wavy surface of blade (WSB), blade attitude of leaf just above upper ear (BAL), anthocyanin coloration of sheath in the middle of plant (ACSh), brace roots(ACBR), fresh anthers and flag leaf angle also, sparse types of spikelet. Values of quantitative traits i.e. fresh and dry yield (kg/plot) and its total, leaf ear width and length, plant height, No. of leaves/plante, No. of tillers and 100 grains weight were varied from trait to other mainly due to genetic background. Molecular marker RAPD analysis polymorphisms among genotypes were detected by five random primers. The high level of polymorphism was occurred with primer OP-C4 which showed 57.1% polymorphism, while the low level of polymorphism was 16.7 % in primer OP-A10. Cluster analysis showed differences between the genotypes which separated into two main clusters, the first cluster was further divided into two sub-clusters (IA and IB), sub-cluster IA Included Balady, Sakha and Dammietta, sub-cluster IB included Gemmeiza3 while, Gemmeiza4 was in a separate cluster. The results of this research of great importance to select the right material which can be used in plant breeding programs as they help for introducing a new variety. Farmer field trails are suggested before the submission of these new varieties to registration testing and its release.