The Premier League has 12 representatives including Allen, as well as Paul Pogba and Zlatan Ibrahimovic of Manchester United.
There is no place for Leicester striker Jamie Vardy, although team-mate Riyad Mahrez is on the list.
Arsenal’s Laurent Koscielny, Aaron Ramsey and Alexis Sanchez join Tottenham’s Toby Alderweireld, Manchester City’s Sergio Aguero and Kevin de Bruyne, Chelsea’s NGolo Kante and Dimitri Payet of West Ham.
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Joe Allen has been included in UEFA's Team of the Year list
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Mesut Ozil missed out on a place on UEFA's list
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Alexis Sanchez made the list having moved into a central role this season
Arsenal’s Mesut Ozil misses out.
But Allen, joining Wales team-mates Gareth Bale and Ramsey, is one of the more eye-catching nominations.
The Premier League, with 12 nominees, was behind only Spain (18) and well ahead of Germany (5), Italy (3), France (1) and Portugal (1).
The full list
GOALKEEPERS
Keylor Navas - Real Madrid
Gianluigi Buffon - Juventus
Rui Patricio - Sporting Lisbon
Jan Oblak - Atletico Madrid
DEFENDERS
Gerard Pique - Barcelona
Joshua Kimmich - Bayern Munich
Toby Alderweireld - Tottenham
Sergio Ramos - Real Madrid
Raphael Guerreiro - Borussia Dortmund
Leonardo Bonucci - Juventus
Laurent Koscielny - Arsenal
Diego Godin - Atletico Madrid
Pepe - Real Madrid
Juanfran - Atletico Madrid
Dani Carvajal - Real Madrid
Jerome Boateng - Bayern Munich
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Leonardo Bonucci has impressed for Juventus and Italy this year
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MIDFIELDERS
Dimitri Payet - West Ham
Yannick Carrasco - Atletico Madrid
Paul Pogba - Man United
Riyad Mahrez - Leicester
Kevin De Bruyne - Man City
Joe Allen - Stoke
Luka Modric - Real Madrid
Aaron Ramsey - Arsenal
Toni Kroos - Real Madrid
Andres Iniesta - Barcelona
N’Golo Kante - Chelsea
Grzegorz Krychowiak - PSG
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Real Madrid star Luka Modric is on the list after winning the Champions League with Real Madrid