Considering that those cards have not been printed as 'Shiny Pokemon,' I assume as well that you're referring to holographic cards. I'm not exactly sure how many I have, but here are some of my favorites:
Ampharos (Dragon), Ampharos (Secret Wonders), Ampharos (Expedition), Electivire Lv.X (Mysterious Treasures), Jolteon (POP3), Magneton (Base Set), Pichu (Black Star Promo), Raichu (Fossil JPN), Raichu (Base Set), Raikou (Neo Revelation), Zapdos (Fossil), Gyarados (Holon Phantoms), Altaria ex (Dragon Frontiers), Crawdaunt ex (Holon Phantoms), Crawdaunt (Dragon), Dark Gyarados (Rocket), Empoleon Lv.X (Black Star Promo), Feraligatr (Neo Genesis), Latios (Holon Phantoms), Ludicolo (Sandstorm), Lumineon (Majestic Dawn), Marill (Southern Islands), Misty's Gyarados (Gym Challenge), Palkia G (Platinum), Palkia (Majestic Dawn), Palkia (Diamond & Pearl), Phione (Majestic Dawn), Poliwrath (Base Set 2), Salamence ex (Dragon Frontiers), Vaporeon (Jungle), Vaporeon (POP3), Wailord (Ruby & Sapphire), Walrein (Hidden Legends), Vaporeon (Delta Species), Ariados (Unseen Forces), Beautifly (Deoxys), Bellossom (Unseen Forces), Celebi (Black Star Promo), Cradily (Power Keepers), Cradily (Sandstorm), Dark Arbok (Rocket JPN), Dark Arbok (Rocket, 23000 misprint), Dark Vileplume (Rocket), Dark Weezing (Rocket), Erika's Vileplume (Gym JPN), Heracross (Hidden Legends), Jumpluff (Team Rocket Returns), Leafeon (Majestic Dawn), Muk (Fossil), Pinsir (Jungle), Rocket's Scyther (Gym Heroes), Sceptile (POP1), Shaymin Lv.X (Black Star Promo), Shaymin of the Icy Sky (Movie 11 JPN), Torterra Lv.X (Diamond & Pearl), Treecko (Black Star Promo), Venusaur (Secret Wonders), Venusaur (POP2), Celebi ex (POP2), Dark Espeon (Neo Destiny), Espeon (Neo Discovery), Espeon (Delta Species), Mew (POP4), Vileplume (Holon Phantoms), Ampharos (Dragon Frontiers), Clefable ex (FireRed & LeafGreen), Clefable (Expedition), Clefable (Jungle), Delcatty (Power Keepers), Erika's Clefable (Gym Heroes), Giovanni's Persian (Gym JPN), Latias (Starter Kit), Latios (Starter Kit), Meowth (Black Star Promo), Porygon-Z (Great Encounters), Rayquaza ex (Black Star Promo), Rayquaza (POP1), Togepi (Southern Islands), Wigglytuff (Jungle), Blaine's Moltres (Gym Heroes), Blaziken (Power Keepers), Entei (Black Star Promo), Flareon (POP3), Heatran (Arceus), Latias (Holon Phantoms), Magmortar (Secret Wonders), Mew (POP5, upside-down back misprint), Moltres (Fossil JPN), Moltres (Legendary Collection), Kingdra (Holon Phantoms), Team Magma's Houndoom (Team Magma VS Team Aqua), Darkrai (Black Star Promo), Mightyena ex (Holon Phantoms), Shiftry (Diamond & Pearl), Shiftry (Legend Maker), Sneasel ex (Ruby & Sapphire), Aggron (Legend Maker), Dialga G (Platinum), Dialga (Platinum), Dialga (Diamond & Pearl), Forretress (Neo Discovery), Magneton (Neo Revelation), Metagross (POP1), Steelix (Neo Genesis JPN), Scizor (Neo Discovery, 20+ misprint), Armaldo (Power Keepers), Golem (Legend Maker), Lucario Lv.X (Majestic Dawn), Lucario (Starter Kit), Machamp (Legend Maker), Machamp (Base Set, edition 1), Meganium (Dragon Frontiers), Ancient Mew (Movie 2000 Promo), Surfing Pikachu (Rising Rivals), Shining Charizard (Neo Destiny), Tyranitar (Majestic Dawn), Tyranitar ex (Unseen Forces), Ho-oh (Secret Wonders), Mew *Star (Dragon Frontiers), Rainbow Energy (Rocket, edition 1), Here Comes Team Rocket (Rocket, edition 1), Rayquaza ex (Deoxys), Latias ex (Dragon Frontiers), Mew (Southern Islands), Mew (Secret Wonders), Articuno ex (Black Star Promo), Raichu ex (Sandstorm), Pikachu (Movie 11 JPN), Kingdra ex (Dragon), Lapras (Legend Maker), Snorlax (FireRed & LeafGreen), Wailord ex (Sandstorm), Kangaskhan (Jungle), Shining Raichu (Neo Destiny), Water Energy (Emerald), Arceus Lv.X (Black Star Promo), Giratina Lv.X (Black Star Promo), Mewtwo Lv.X (Black Star Promo), Gardevoir (Power Keepers), Banette (Power Keepers), Arceus (Arceus, Psychic), Deoxys (POP4), Mew (Legend Maker), Psychic Energy (Emerald), Mewtwo (Black Star Promo JUMBO), Darkrai (Black Star Promo JUMBO)...
Dang, I have a lot of favorites! And this isn't counting refractor foils!
I have many more in binders that I'm just to lazy to look at.