On a fifth inning double play, Rodriguez pulled up prior to first base just before the throw beat him. Immediately afterward, he looked as if he grabbed his hamstring.
A-Rod walked off gingerly, mixing in a little slow jogging into his trip off the field.
In the eighth inning, when his next turn came up, Dustin Ackley pinch-hit for A-Rod. The Yankees did not immediately announce an injury.
Rodriguez missed two games last week because of an oblique injury.
For the struggling Yankees, Rodriguez has been a recent bright spot in the lineup. He entered Tuesday having gone 6-for-14 in the Yankees' previous six games. He still began the game batting just .203 with five homers and 12 RBIs.
Rodriguez, 40, is being paid $21 million this season and is owed $21 million more for 2017, which will be the final year of his 10-year, $275 million.