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Special genes refer to the patterns, colors and otherwise odd genes that are not a result of being a particular species. There are genes that are specific to some species that may be special for others--such as bobtail!

The genetics work in simple ways. Many genes work via simple dominant/recessive relationships. This includes:

Sable

Speckle

Glow

Dilute

Panda

Others are "dosage dependent" IE they are incompletely dominant

Benign White

Dominant Black

Inkspot

Brindle

Some require multiple genes.

Merle

Some are an unstable allele. In the case of albinism, the gene can randomly mutate (about 1/100 breedings).

Some have other, unintended consequences, such as starburst.