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Color Inheritance in Arabians (Or how you can cross a black and a gray, each carrying a chestnut gene, and get a bay foal) - in Layman's Terms

The gray mare with a chestnut base coat has the "agouti" gene which is not expressed in chestnut horses, because its color modifying effect is to restrict black to the points thus making a horse who would otherwise have been black into a bay. The color genes are not all different versions of a single gene locus; there are many different gene sites that effect color. The "base" coat color is determined by a single gene locus that has two pairs of genes (one inherited from each parent). The two options for these base color genes are red (chestnut) and black. The "red" version is recessive to black so that if a horse has one red and one black version (heterozygous) it will have a black base coat.

But nature didn't leave it so simple. There are then many modifier genes that will alter the base coat. The "agouti" gene locus is one of these. Like all other genes, each horse will have two pairs. This gene does not effect red coat pigment so it is not expressed in red horses. It comes in two versions that are basically like "on" and "off". "On" means if a horse has a black base coat the black coloration will be restricted to the legs, muzzle, mane, and tail (a bay). "Off" means that if a horse has a black base coat, it will not be restricted to the body points. Since the "on" version is dominant to the "off" version, only one version of the pairs needs to be the "On" kind to make a black horse into a bay. Since a chestnut horse has no black coat to be affected by this gene you cannot tell by looking at it whether or not it carries any copies of the gene that will cause a black coat to become a bay one. Obviously, black horses have two copies of the "off" version of agouti while bays have one or two copies of the "on" version.

Gray is determined by another gene site. The "graying" version is dominant to its "non-gray effect" version so that only one copy of this gene is needed for the gene to be fully expressed. One copy will cause the horse to turn gray no matter what other color genes it also has. All horses have gene versions at all the color gene sites, but not all of the gene versions cause an effect. For example, horses that are not gray merely have two copies (homozygous) of the non-graying version of that gene. There are many other color gene sites that can have subtle or dramatic effects on a horse's color. Many of these genes are not present in their "active" version in Arabians (ie: no dilutions like cremello or buckskin, or tobianos, or overos, etc.)

For more complete information on equine color genetics (or to clarify what I have attempted to translate into layman's terms):
http://www.vgl.ucdavis.edu/~lvmillon/

Contributed by Dawn Jones-Low
Faerie Court Farm
Ferrisburgh, VT