Basically all Audi's have the same bell housing. They make transmissions for VW, Porsche, Scota(spelling?) and others. ebay UK is full of TDI pars cars. Some have transverse engines like a GTI. These trannies will not work. You need a longitudinal tranny like that of the A4, Passat, A6, A8, Boxster, etc. TDI trannies have taller gears since they only rev to 3500rpm. They can also withstand more torque than the gas versions.
Here is an example of cheap transmissions (gearbox in the UK)
http://www.ebay.co.uk/sch/i.html?_from=R40...ox&_sacat=0I found my Boxster S 6 speed on this site for $700 and $245 shipping. 3 day shipping with TNT. The seller strapped it to a pallet and called TNT.
Most of these trannies will accept the Boxster linkage, cables and shifter. On my Passat 5 speed, I had to make linkage to work due to a threaded boss not being drilled and tapped. I did not want to drill into the side of the tranny. The Passat gears are slightly too low for my turbo power band but it will do 80mph @ 3200 rpm. My 6 speed is the same overall ratio, same speed same rpm.
The DUK has good ratios for a V8 but is only a 5 speed. You will have to search for a TDI 6 speed to get better ratios and 6 gears.
I will never recommend dropping the clutch in 1st gear with any of these trannies with an LS1. Drive smart and parts last. Buy a Mendeola if you want to do burn outs.