Just wanted to comment that I'm not sure this has been completely fixed--it displays correctly, but cities don't acknowledge the new terrain level if you've built them before casting the raise/lower spells.
Over a couple games I noticed that if I lowered a hill or mountain that was blocking a city off from building structure, the city still wouldn't be able to construct in that area after the land has been lowered. Usually it works fine if I lower the offending hills or mountains and then settle the outpost, but not always.
Additionally, if I have units too close to land that is being raised or lowered, occasionally one member of a group will disappear, and sometimes it will swallow up goodie huts as well. I've changed the way I play to work around these issues, so I don't have a current save or debug to illustrate it.
...this is in 1.09n Beta.