Jones has suffered with a knee problem and has not featured for the Red Devils since the Premier League win over Swansea on 2 January.
"We do not have enough time for him to get in a good condition. Maybe we have to play him," said boss Jose Mourinho.
Full-back Antonio Valencia is "out for a while" with a fracture in his arm.
Defender Chris Smalling, midfielder Michael Carrick and winger Memphis Depay will all miss the Group A tie in Turkey.
United are second in their group, two points ahead of Dick Advocaat's Fenerbahce, who they beat 4-1 two weeks ago at Old Trafford.
Forward Anthony Martial plus midfielders Timothy Fosu-Mensah and Henrikh Mkhitaryan have all travelled having missed the 0-0 Premier League draw against Burnley on Saturday.
http://www.bbc.co.uk/sport/football/37847391
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