The Great Rift Valley as originally described by Gregory extends from Lebanon in the north to Mozambique in the south, and constitutes one of two distinct physiographic provinces of the East African Highlands physiographic division. The northernmost part of the Rift, today called the Dead Sea Transform or Rift, forms the Beqaa Valley in Lebanon separating the Lebanon Mountains and Anti-Lebanon Mountains. Further south it is known as the Hula Valley separating the Galilee mountains and the Golan Heights. The Jordan River begins here and flows southward through Lake Hula into the Sea of Galilee in Israel, then continues south through the Jordan Valley into the Dead Sea on the Israeli-Jordanian border. From the Dead Sea southwards, the Rift is occupied by the Wadi Arabah, then the Gulf of Aqaba, and then the Red Sea. Off the southern tip of Sinai in the Red Sea, the Dead Sea Transform meets the Red Sea Rift which runs the length of the Red Sea. The Red Sea Rift comes ashore to meet the East African Rift and the Aden Ridge in the Afar Depression of East Africa. The junction of these three rifts is called the Afar Triple Junction.
In eastern Africa the valley divides into two, the Western Rift Valley and the Eastern Rift Valley.
The Western Rift, also called the Albertine Rift, is edged by some of the highest mountains in Africa, including the Virunga Mountains, Mitumba Mountains, and Ruwenzori Range. It contains the Rift Valley lakes, which include some of the deepest lakes in the world (up to 1,470 meters deep at Lake Tanganyika). Lake Victoria, the second largest area freshwater lake in the world, is considered part of the Rift Valley system although it actually lies between the two branches. All of the African Great Lakes were formed as the result of the rift, and most lie within its rift valley.
In Kenya the valley is deepest to the north of Nairobi. As the lakes in the Eastern Rift have no outlet to the sea and tend to be shallow they have a high mineral content as the evaporation of water leaves the salts behind. For example, Lake Magadi has high concentrations of soda (sodium carbonate) and Lake Elmenteita, Lake Bogoria, and Lake Nakuru are all strongly alkaline, while the freshwater springs supplying Lake Naivasha are essential to support its current biological variety.
The Rift Valley in East Africa has been a rich source of fossils that allow study of human evolution, especially in an area known as Piedmont.
Because the rapidly eroding highlands have filled the valley with sediments, a favorable environment for the preservation of remains has been created. The bones of several hominid ancestors of modern humans have been found there, including those of "Lucy", a nearly complete australopithecine skeleton, which was discovered by anthropologist Donald Johanson. Richard and Mary Leakey have also done significant work in this region.
More recently, 2 other hominid ancestors have been discovered there: a 10-million-years-old ape called Chororapithecus abyssinicus, found in the Afar rift, in eastern Ethiopia, and the Nakalipithecus nakayamai, who is also 10 million years old.