Both coach Antonio Conte and general manager Beppe Marotta levelled accusations at the match officials after being denied a late penalty.
"There are very important games and a series of protagonists who live through them with emotion and sporting fire," said Agnelli.
"Asking them to behave like English Lords at the end of the match is difficult, especially when such a shocking incident occurs right at the death.
"Reactions in the world of football will always exist. When certain incidents occur around Juventus, they are always emphasised, but reactions in the heat of the moment must not be used for other reasons.
"Marotta's statements last night were very calm and I'm sure the refereeing designator will look into how opportune certain choices are. When it comes to future designations, we will see whether his statements are considered or not.
"Having said that, we must go forward, aware that whoever is right will be out in front come May. We have many expectations and realise it is more difficult to confirm success rather than win the first time.
"The teams behind us have legitimate ambitions and Napoli must be considered a very serious contender for the title, as they have a strong squad and a capable Coach."