Quick update.
After opening the GBA cartridge I did some searching for ways to extract saves from corrupt fake copies with the all the text and numbers that are on the internal parts but sadly couldn't find anything useful.
However after cleaning the circuit board with an alcohol wipe and reassembling it and then testing it in my Nintendo DS Lite, the cartridge worked again, or at least it gave the message that the save would be loaded. But of course, the save it loaded was the 26 second save.
So with that I think it's fairly save to assume my old save is just completely gone. RIP Rayquaza.
Once again, thanks for your help theSLAYER and sorry for wasting your time.