Another 12 teams including Braga, Lille, Villarreal, Royal Antwerp, Dinamo Zagreb, Red Star Belgrade, Benfica and Leverkusen advanced with a game to spare.
Ten-man Benfica came from two goals down to draw 3-3 with Rangers after an equalizer in injury time, and Arsenal had to come from one goal down to beat Norwegian club Molden 4-1 at home for its third straight win.
Tottenham saw its 10-match unbeaten run end, despite having Gareth Bale in the starting lineup for a second straight time in the competition.
North London rival Arsenal opened its fourth straight Europa League campaign with a 2-1 come-from-behind win at Rapid Vienna in an opening round of games affected by the coronavirus pandemic.
Arsenal, the Europa League runner-up in 2019, is the highest-ranked team in the competition and was grouped with Rapid Vienna, Molde and Dundalk. North London rival Tottenham will face LASK, Ludogorets Razgrad and Royal Antwerp.
Milan trailed 2-1 in extra time until Toni Borevkovic gave away a penalty in the 121st minute with a careless handball, allowing Hakan Calhanoglu to level from the spot.
There were no major upsets as Tottenham, Celtic, Wolfsburg, PSV Eindhoven and Sporting Lisbon all advanced to the playoff round.
The 38-year-old Swedish striker will miss all important Europa League third-round qualification clash on Thursday.
Milan has missed four seasons of UEFA competitions since 2014 and was unseeded this year.
Tottenham went 1-0 down in the 71st minute but Harry Kane equalized from the penalty spot 10 minutes from time before substitute Tanguy Ndombele netted the winner five minutes later.
Milan visited Ireland 45 years ago to draw 0-0 with Athlone Town in a UEFA Cup second round, first-leg game. Milan won the return game 3-0.
UEFA President Aleksander Ceferin stressed he would consult widely before pushing for any permanent changes to the format.
It's a competition made to measure for Sevilla. The club's big enough to have qualified for Europe for the last seven seasons.
Conte said he needed time to reflect after the 3-2 loss in the final left his Inter team the runner-up for the second time this season after finishing a point behind Juventus in Serie A.
Instead of blocking Diego Carlos' overhead kick — which was going wide — Romelu Lukaku deflected it into his own net. That handed Sevilla a 3-2 win in the final Friday and a record sixth Europa League title.
Sevilla vs Inter Milan, Europa League final live streaming in India: Find full details on when and where to watch SEV vs INT Live online on SonyLIV and TV Telecast on Sony Sports Network.
Inter Milan will be taking on Sevilla for the Europa League title on Friday.
Sevilla entered the final of the Europa League after defeating Manchester United 2-1.
Manchester United vs Sevilla Live Streaming Europa League in India: Here are the details of when and where to watch MAN UTD vs SEV live football match online and on television.
Four Brazilians scored for the Ukrainian side before Ricky van Wolfswinkel netted a consolation goal for the Swiss side.
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