The morphology and anatomy of Cakile maritima subsp. aegyptiaca and Cakile arabica are organized in this work to invent the different characters between the two studied species. The species were collected fresh from Mersa-Matruh in Egypt and Dammam city in Eastern region of Saudi Arabia. The main characteristic to distinguish between the different Cakile species is the morphology of the fruit, C. maritima was characterized by the occurrence of 2 opposite lateral horns in its fruit, and the absence of this in the other species. In this paper many characteristics other than fruit morphology are noticed to differentiate between them as habit of stem, type of leave, texture of sepal, seed shape, stem outline, types of cortex, pericycle tissue and number of vascular bundles. These characteristics can be used as tools for identification between the different species belonging to the same genera. Key words: Vegetative part, flowering part, anatomy, Cakile maritima, Cakile arabica.