Pennington said Sunday morning that he thought he was able to play, but manager Kirk Gibson has alternated playing Pennington and Didi Gregorius at short for the last few weeks.
The D-backs planned to send Pennington for an X-ray on Sunday.
"He's pretty sore," Gibson said.
Steve Gilbert is a reporter for MLB.com. Read his blog, Inside the D-backs, and follow him on Twitter @SteveGilbertMLB. This story was not subject to the approval of Major League Baseball or its clubs.