Equine coat color genetics determine a horse's coat color. Many colors are possible, but all variations are produced by changes in only a few genes. The "base" colors of the horse are determined by the Extension locus, which in recessive form (e) creates a solid chestnut or "red" coat. When dominant (E), a horse is black. The next gene that strongly affects coat color, Agouti, when present on a horse dominant for E, limits the black color to the points, creating a shade known as Bay that is so common and dominant in horses that it is informally grouped as a "base" coat color.

Over these three "base" colors can be any number of dilution genes and patterning genes. The dilution genes include the wildtype dun gene, believed to be one of the oldest colors extant in horses and donkeys. Depending on whether it acts on a bay, black, or chestnut base coat, it produces the colors known as bay dun, grullo, and red dun. Another common dilution gene is the cream gene, responsible for palomino, buckskin, and cremello horses. Less common dilutions include Pearl, champagne and silver dapple. Some of these genes also lighten eye color. Genes that affect the distribution of melanocytes create patterns of white spotting or speckling such as in roan, pinto, leopard, white or white spotting, and even some white markings. Finally, the gray gene causes depigmentation of the hair shaft, slowly adding white hairs over the course of several years until the horse's body hair is near or completely white.

Some of these patterns have complex interactions. For example, a single horse may carry both dilution and white patterning genes, or carry genes for more than one spotting pattern. Horses with a gray gene can be born any color and their hair coat will lighten and change with age.

Most wild equids are dun, as were many horses and asses before domestication of the horse. Some were non-dun with primitive markings, and non-dun 1 is one of the oldest coat color mutations, and has been found in remains from 42,700 years ago, along with dun. Non-dun 2, the version of the dun gene that most domestic horses have, is thought to be much more recent, possibly from after domestication. Leopard complex patterns also predate domestication, having been found in horse remains from 20,000 years ago. The mutations that create black and bay color also predate domestication. The mutations causing chestnut, sabino 1, and tobiano pinto are all at least 5000 years old, occurring about the same time as horse domestication. Silver and cream dilutions appeared at least 2,600 years ago, and pearl appeared at least 1400 years ago. The gray mutation is also post-domestication but thought to be thousands of years old as well.