Yes, Thunderpunch is a special attack in the game. Thunderpunch didn't become a physical attack until Diamond/Pearl/Platinum, which introduced the physical/special split.
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Rayquaza.
Special Attack determines the amount of damage dealt from a move that is in the Special category of attacks. An example of a special attack would be Bubblebeam. If an attack is in the special category, it means that it is an attack in which your Pokemon's body does not make physical contact with the other Pokemon. Example: Tackle would be a physical attack, because your Pokemon charges at your opponent's Pokemon, which makes them physically contact, while Bubblebeam is projected from a Pokemon's mouth, so your Pokemon does not physically touch your opponent's Pokemon. Special Defense deals with how much protection you get from Special category moves.
Special attack cause its a electric type.
For Pokemon Ruby, Saphire, Emerald, FireRed, and LeafGreen the following applies to all Pokemon attacks. Attack Based: Normal, Fighting, Poison, Ground, Flying, Bug, Rock, Ghost, Steel. Special Attack Based: Fire, Water, Thunder, Leaf, Ice, Psychic, Dragon, Dark. This even included the Punches (Fire, Ice, Thunder) and moves like Crabhammer. ToLesto: actually ghost is now special attack was only normal in the first gen
The following list of pokemon are catchable or obtainable in Pokemon Firered: Ekans Arbok Oddish Gloom Vileplume Psyduck Golduck Growlithe Arcanine Shellder Cloyster Scyther Electabuzz Bellossom Wooper Quagsire Murkrow Qwilfish Scizor Delibird Skarmory Elekid Deoxys (Attack Forme)* *Deoxys is an Event pokemon that can only be obtained with cheat codes and it has three forms, Attack, Defense, and Speed. The attack forme is exclusive to Firered.