[PhpStorm Rebase branch pop-up] "4.Specify the new base and the commits you want to apply." But I don't see any commits choice to select in this window.

With a  Rebasing a Branch to a Specific Commit there is a point 4. saying "From the Onto drop-down list, select the required branch and specify the commit to move the base to."

 

How to specify the commit?

 

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You don't specify a commit, you specify a branch, its last commit is taken.
https://git-scm.com/docs/git-rebase

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