If you want to seed from a different partition just Paste the files there first. Open up uTorrent, it should give you a files missing error. Stop the torrent which you are uploading (seeding) , right-click the torrent -> Advanced -> Set Download Location... and select the folder on the new drive [E:]. Start the torrent. Delete the files form D: if you want to.

If the error still appears right-click the torrent -> Force Re-check

This only applies if the files are same as when you downloaded them. The filenames cannot change.