Uefa has charged Besiktas with the improper conduct of their fans following Tuesday's Champions League match against Chelsea.
The game, held in the AufSchalke Arena in Gelsenkirchen, Germany, saw flares and missiles thrown on to the pitch.
The match was held in Germany after recent terrorist attacks in Istanbul.
Both the referee's and the delegate's reports included the incidents which
will be probed at the Uefa control and disciplinary body on 21 February.
The Chelsea bench were forced to raise umbrellas to shield themselves from coins and other objects being thrown from the crowd.
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It is not nice being spat at but what can you do - you cannot fight 50,000 people
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And the start of the second half was delayed after part of the pitch was covered with rolls of toilet tissue.
"It was lucky that nobody was hurt," said Chelsea midfielder Frank Lampard.
"We had bundles of coins coming at us, even in the warm-up."
Chelsea defender John Terry compared the experience to playing for England in Turkey in their final Euro 2004 qualifier in October.
"It was pretty similar to Turkey but this was one of the most hostile crowds I have ever played in front of," said the Chelsea defender.
"It is not good for football and they should definitely do something about it. It seems to be part of their football and it is not nice but thankfully nobody got hurt.
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We would not be seeking to change the venue of the Champions League final
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"They had 50,000 fans here but we went out and did a great job. We knew what to expect and fortunately it didn't affect us at all."
Despite the trouble at the AufSchalke Arena, Uefa insists that the Champions League final will go ahead at the stadium as planned next year.
"We have opened disciplinary proceedings against Besiktas for the behaviour of their fans, which was unacceptable," said spokesman Mike Lee.
"That will lead to a disciplinary charge and a hearing in the New Year.
"We would not be seeking to change the venue of the Champions League final.
"We will have a full report on everything that went on during the game and any concerns about the venue we will have to address with the local organisers."