The depositional and stratigraphic studies of the Miocene sediments exposed at the north part of the eastern desert, clearly established. It is divided into two rock units, the lower siliciclastic one termed as Gharra Formation, representing the lower Miocene (Burdigalian) and upper carbonate, termed as Genefa Formation of Middle Miocene age (Langhian). The microfacies investigations of thirteen thin sections in the Gharra Formation revealed the presence of inner-shelf to intertidal lagoons facies whereas the microscopic investigations of twenty two thin sections from Genefa Formation revealed inner-shelf, middle neritic and outer shelf facies. The depositional sequence was initiated and developed as a result of the first advance of the Miocene Sea over the study area with type-1 Sb over the continental sediments of the Oligocene. Retrogradational parasequence are successively stacked within the LST, whereas the transgressive surface (ts) almost coincides with the stratigraphic contact between the Gharra and Genefa formations with a marked change in the parasequences geometry into retrogradational–aggradational nature with clear sea-level rise. By the Middle Miocene, a general sea level rise accompanied by deeper accommodation depositional setting due to tectonic subsidence, where relatively deeper marine facies started to deposits the Genefa Formation, just over the transgressive surface (ts). These sediments constitute the general transgressive system tract in the study area. It includes well-stacked retrogradational-aggradational parasequences mainly deposited within shelf zones.