Msref is now headed by real-estate veteran John Klopp, former chief executive of Capital Trust Inc.
"There is one very disappointed team in this moment and one lucky team, " Klopp told Sky Sports.
"That was thrilling at the end, the last few minutes were unbelievable, " Dortmund coach Jurgen Klopp told AFP.
CNN: Dortmund sink Bayern in Bundesliga top of the table clash
Credit for this must go to Klopp and general manager Michael Zorc, who oversees the club's scouting and acquisitions.
WSJ: Soccer's Borussa Dortmund Faces Uphill Battle to Maintain Success
"If this will be my only final in my life, it's the perfect place for this, " Klopp said then.
Even Klopp had to concede that it would probably take two years for his side to make it back.
So perhaps its biggest challenge over the coming years will be retaining Klopp.
Dortmund coach Jurgen Klopp insists he is more than happy with his side's position going into next week's second leg.
But Bayern may have a harder time shaking the tag that Dortmund manager Jurgen Klopp applied in an interview before the game.
Klopp has instilled in Dortmund a non-stop adventurous style of football and the "Footbonaut" is the next step in their pursuit of excellence.
Klopp didn't have to look far to see which ones would be heading for the exit, or which clubs were making eyes at them.
"Now we have to make a holiday, buy some new players, because we need some players, because other clubs want our players, " Klopp said.
Schmeichel captained United to European club football's biggest prize in 1999 and believes Jurgen Klopp's German champions have the ability clinch Europe's premier competition.
Borussia Dortmund can count on the development of arguably the best crop of young players in Europe, a group assembled by manager Jurgen Klopp.
Dortmund coach Jurgen Klopp is bidding to emulate the achievement of the 1997 side who won the Champions League but is guarding against optimism.
Jurgen Klopp's Dortmund side had also come into the match in good form, but this defeat saw them suffer their first loss in 13 matches.
There was a sense of destiny about Dortmund, since Jurgen Klopp's men scored two injury-time goals in the second leg of the quarterfinals against Malaga to advance.
"It is really nice to see how well Dortmund and Klopp are liked all over Europe, " Sandra Goldschmidt, a devoted follower of the club, told CNN.
For while the absence of Dortmund's main playmaker represents a major tactical blow for coach Jurgen Klopp, it has been welcomed by a section of the club's supporters.
"We now draw a thick line under the Bundesliga season and see now if all the players are fit for the final, " Klopp told AFP after the defeat.
Dortmund have been German champions in each of the last two season, with coach Jurgen Klopp earning praise for the vibrant, attacking football played by his young team.
Clearly, neither Juventus boss Antonio Conte nor his Borussia Dortmund counterpart, Jurgen Klopp, felt it was worth doing, despite the fact that they could have chosen to rotate their squads without any real downside.
Jurgen Klopp's team will next host Real Madrid on Wednesday, when Jose Mourinho's team will seek to improve on a dismal record of just one victory in 24 visits to Germany in European competitions.
CNN: Bayern brimming with confidence ahead of Barcelona clash
In the Bundesliga, Dortmund have also lagged as Bayern have romped to the title, but Jurgen Klopp's side have looked a different proposition in the Champions League and are the only unbeaten side in this season's competition.
CNN: Spanish giants kept apart in Champions League semifinals
Klopp has led Dortmund to back-to-back German titles and guided the 1997 Champions League winners to the top of a group which contained Real Madrid, Manchester City and Ajax after failing to reach the knockout stages last season.
"We made our share of mistakes and simply did not foresee the ferocity of the storm that was approaching, " John Klopp, the company's former chief executive, said on an investor call in late 2009, according to a transcript.
Juergen Klopp's men should have added to their tally but with 13 minutes left Mats Hummels fouled Kevin Volland to concede a penalty and also limped off with a turned ankle, leaving him a possible doubt for next week's final.
Under the guidance of charismatic coach Jurgen Klopp, whose popularity has seen a pop song written about him, Dortmund's run to the final has left even the most hard-hearted of seasoned aficionados willing on the men in yellow and black.
Jurgen Klopp's team sits fourth in the German top flight and is being heavily tipped for European success after excelling in a Champions League group containing Real Madrid, Manchester City and Ajax, with the Spanish club's manager Jose Mourinho viewing them as candidates to win the tournament.
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