that didn't work. But I found an entry in .gnupg/gpg.conf where the file
path for the agent was explicitly set to /tmp/seahorse-4VRcyo/S.gpg-
agent

This is strange, because I didn't configured that. Or at least I don't
know when and how I made that change.

Deleting the line with

gpg-agent-info=/tmp/seahorse-4VRcyo/S.gpg-agent:12345:1

fixed the problem.

-- 
Problem with gpg-agent and seahorse
https://bugs.launchpad.net/bugs/149359
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