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William, 35, third in line to the British throne, will travel without his wife and children, with further details of the visit to be unveiled at a later stage.
"The visit is at the request of Her Majesty's Government and has been welcomed by the Israeli, Jordanian and Palestinian authorities. Further details will be announced in due course," Kensington Palace said in a statement.
The visit, seen as a significant diplomatic move, is designed to promote cultural and diplomatic ties with the region, with William expected to spend some time with senior politicians and visit local charities.
"This will be a unique and special opportunity for His Royal Highness to meet Palestinian people and see the reality of life in the Holy Land. I know he is looking forward to the visit enormously".
Last year, it was reported that there were plans for William's father Prince Charles to visit Israel in an official capacity but the trip was reportedly cancelled over fears it could anger the UK's Arab allies.
The decision to send William, who took over full-time royal duties last year, marks a careful diplomatic move to keep all sides happy.
Prince Charles has paid unofficial visits to the region for the funerals of Israeli leaders Yitzhak Rabin and Shimon Peres, and his father, Prince Philip, went in a private capacity in 1994 to visit the grave of his mother.