Have a scratch in a panel and have flated it but gone to the primer where the scratch was can I base the panel over the clear if i rub the lot with 1200 grit

Please see:

https://www.paintscratch.com/touch-up-paint-directions/

Obtaining a Glossy Finish with Rubbing Compound
Our paint requires a final polishing with rubbing compound (which we sell on our site) to make the paint glossy. Do not use polishing compound, it is not aggressive enough to polish the paint. There is a big difference between rubbing and polishing compound. Also, do not use heavy duty rubbing compound as this is too aggressive and will dull your paint. If you are spraying a large area, we recommend having the area machine polished as trying to polish the area by hand would be time consuming and require considerable pressure to obtain the proper gloss. You can use polishing pads with your electric drill, or go to your nearest detail shop and have them polish it for you. Machine polishing takes skill and it's very easy to burn right through the paint. Our rubbing compound can be applied by hand or machine.