The Portuguese was investigated by the Asian Football Confederation for his outburst following the second leg of the quarter-final against the Chinese Super League rivals in Guangzhou.
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The AFC's disciplinary committee fined him for his "offensive words" at the referee during his post-match media conference in Guangzhou, the governing body said in a media release on Tuesday.
Villas-Boas had said the referees favoured Guangzhou during the two legs of the quarter-final and claimed the AFC were influenced by the powerful southern China club.
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Villas-Boas's side face Japan's Urawa Red Diamonds at Saitama Stadium outside Tokyo on Wednesday in the first-leg of the ACL semi-final.
The return meeting will be staged at Shanghai Stadium on October 18, with the winners facing either Iran's Persepolis or Al Hilal of Saudi Arabia in the final in November.
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