After upgrading Ubuntu, this strange behaviour has finished. Now I can correctly paste from Emacs to other Gnome apps. One of the updated packages has fixed this problem.
** Changed in: emacs21 (Ubuntu)
Status: Unconfirmed => Rejected
** Changed in: emacs21 (Ubuntu)
Status: Rejected => Fix Committed
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Edgy: cannot paste text in Gnome apps from Emacs
https://launchpad.net/bugs/55631
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