Bayern Munich will meet Real Madrid, who beat holders Manchester City on penalties on Wednesday.
“They are fine and only went to hospital for a routine check-up,” said a spokesperson for the England captain.
The former Tottenham striker enjoyed a prolific record in north London derbies and a summer change of scenery made no difference.
The England captain is however no closer to that elusive first piece of silverware.
Kane is back in north London for the first time since leaving Tottenham last year as Bayern prepare for Tuesday's Champions League quarter-final first leg at Arsenal.
Saturday's "Der Klassiker" between Bayern Munich and Borussia Dortmund will unusually not be about controlling the title race or taking over the top spot in the German Bundesliga.
Brazil will hope not to break an ignominious 23-year-old record when they visit Wembley Stadium to square off against hosts England in a mouthwatering friendly on Saturday.
England captain Harry Kane will miss Saturday's friendly against Brazil and is "extremely doubtful" to face Belgium next week.
Harry Kane broke a 60-year record for most goals in a debut season while Jamal Musiala scored twice as Bayern Munich won 5-2 at Darmstadt on Saturday.
Bayern Munich manager Thomas Tuchel lavished praise on English striker Harry Kane after his Bundesliga debut ended in a 4-0 away win at Werder Bremen on Friday.
Dani Olmo was the star of the show, producing a virtuoso performance and scoring a hat-trick in Munich as Kane's dream of clinching his first major silverware was shattered
Son Heung-min was named Tottenham's new captain on Saturday on the day the club's all-time top goalscorer Harry Kane joined Bayern Munich.
The two clubs have agreed a fee estimated to be worth a Bundesliga record 100 million euros ($110 million, £86 million) for the 30-year-old, who had just one year left on his contract at Tottenham
Manchester United manager Erik ten Hag insisted Friday he had no regrets about bringing Rasmus Hojlund to Old Trafford instead of Bayern Munich-bound Harry Kane.
Tottenham Hotspur striker Harry Kane has not yet completed his move to Bayern Munich but the German champions are working hard to finalise the deal, said Bayern coach Thomas Tuchel on Friday.
Tottenham Hotspur striker Harry Kane has agreed to move to German champions Bayern Munich after the two clubs reached a preliminary deal for his transfer, Germany's Bild newspaper said on Friday.
Bayern, who did not comment on the reports, have been trying to sign the striker for months with any deal worth around an estimated 100 million euros ($110.19 million)
Brazilian striker Richarlison scored three second-half goals as Tottenham Hotspur came from behind to beat local side Lion City Sailors 5-1 in a pre-season friendly at Singapore's National Stadium on Wednesday.
New Tottenham coach Ange Postecoglou said on Monday Harry Kane was "totally committed" to his vision for the north London club as speculation mounts over the England captain's future.