You said you checked the fuses, but did you check the relays? Check the relays under the hood, I take it your brake lights are out too?
Are you sure you hooked up the cables correctly? Often times when people cross the cables they blow fuses and electronics do not work correctly.
There is a small tab on the top of the shifter, you can pop that out and jam in a screwdriver and shift, however I do not recommend driving with no gauges (or brake lights)
On this diagram, number 22 is the fuse for the shifter and number 19 is for the brake lights. Number 8 is for the radio and remote. Double check those fuses again, as they could have blown again, but most likely it is the alternator relay (number 39). Check 39 before you do anything else, there are two screws next to it holding it in and you will have to remove the entire fuse box to get to the screws. It is a 100 Amp and usually blows when the cables are crossed and I am willing to bet that is the problem. Disconnect the battery before removing the fuse box. Get the fuse from the dealer, it will be expensive.
http://i16.photobucket.com/albums/b4...elocations.jpg
Which fuse on that diagram was blown and you replaced? Was it number 12? If not, double check that one too.