Dog coat genetics

Modern dog breeds have a wide range of coat colors, patterns, textures and lengths. Knowledge of the genetics of canine coat coloring and patterning and coat texturing and length has improved a great deal in recent years.
Dog coat color is governed by how genes are passed from dogs to their puppies and how those genes are expressed in each dog. Dogs have about 19,000 genes in their genome but only a handful affect the physical variations in their coats. And the usual rules apply—most genes come in pairs, one from the dog’s mother and one from its father. Genes of interest have more than one version, or allele. Usually only one or a small number of alleles exist for each gene. So, at any one gene locus a dog will either be homozygous, that is, the gene is made of two identical alleles or heterozygous, that is, the gene is made of two different alleles.
To understand why a dog’s coat looks the way it does based on its genes requires an understanding of a handful of particular dog coat genes and their alleles. For example, if you wanted to find out how a black and white greyhound that seems to have wavy hair got its coat, you would want to look into the dominant black gene with its K and k alleles, the spotting gene with its multiple alleles, and the R and r alleles of the curl gene.

Genes associated with coat color

Each hair follicle is surrounded by many melanocytes, which make and transfer the pigment melanin into a developing hair. Dog fur is colored by two types of melanin: eumelanin and phaeomelanin. A melanocyte can be signaled to produce either color of melanin.
The various dog coat colors are from patterns of:

Eumelanin — black, chocolate brown, grey or taupe pigment;
Phaeomelanin — tan pigment, including all shades of red, gold and cream pigment; and/or
Lack of melanin — white.

By 2020, more than eight genes in the canine genome have been verified to determine coat color. Each of these has at least two known alleles. Together these genes account for the variation in coat color seen in dogs. Each gene has a unique, fixed location, known as a locus, within the dog genome.
Some of the loci associated with canine coat color are:

Pigment shade

Several loci can be grouped as affecting the shade of color: the Brown, Dilution, and Intensity loci.

B (brown) locus

The gene at the B locus is known as tyrosinase related protein 1. This gene affects the color of the eumelanin pigment produced, making it either black or brown. TYRP1 is an enzyme involved in the synthesis of eumelanin. Each of the known mutations appears to eliminate or significantly reduce TYRP1 enzymatic activity. This modifies the shape of the final eumelanin molecule, changing the pigment from a black to a brown color. Color is affected in coat and skin.
There are four known alleles that occur at the B locus:

B = Black eumelanin. An animal that has at least one copy of the B allele will have a black nose, paw pads and eye rims and dark brown eyes.
b = Brown eumelanin - such as chocolate or liver. An animal with any matched or unmatched pair of the b alleles will have brown, rather than black, hair, a liver nose, paw pads and eye rims, and hazel eyes. Phaeomelanin color is unaffected. Only one of the alleles is present in the English Setter, Doberman Pinscher and Italian Greyhound, but in most breeds with any brown allele 2 or all 3 are present. It is unknown whether the different brown alleles cause specific shades or hues of brown.

B is dominant to b.
. K^B for solid eumelanin coat; b/b for brown eumelanin lightened by d/d dilution.

D (dilute) locus

The melanophilin gene at the D locus causes a dilution of both eumelanin and phaeomelanin and determines the intensity of pigmentation. MLPH codes for a protein involved in the distribution of melanin - it is part of the melanosome transport complex. Defective MLPH prevents normal pigment distribution, resulting in a paler colored coat.
There are two common alleles: D, and d that occur in many breeds. But recently the research group of Tosso Leeb has identified additional alleles in other breeds.

D = Not diluted. Black or brown eumelanin, reddish or orangish tan phaeomelanin.
d = Diluted. Diluted fur color: black eumelanin diluted to bluish grey ; brown eumelanin diluted to taupe or "Isabella". Phaeomelanin is diluted from red to yellowish tan; this phaeomelanin dilution is not as dramatic as the eumelanin color shift. Slight to moderate dilution of the paw pads and eye rims towards bluish grey if B/- or taupe if b/b, and slight to moderate reduction of eye color from brown towards amber in a B/- animal, or from hazel towards light amber in a b/b animal.

D is completely dominant to d.
Homozygosity of d is sometimes accompanied by hair loss and recurrent skin inflammation, a condition referred to as either color dilution alopecia or black hair follicular dysplasia depending upon the breed of dog.

Color gene interactions

I (intensity) locus

The alleles at the theoretical I locus are thought to affect phaeomelanin expression. Two alleles are theorised to occur at the I locus:

I = Intense red, not diluted
i = Not intense red

It is thought that I and i interact with semi-dominance, so that there are three distinct phenotypes. I/i heterozygotes are paler than I/I animals but darker than i/i animals.

i results in light-coloured phaeomelanin such as gold, yellow, buff and apricot. This gene is the most common cause of lighter tans, and unlike d/d, it allows the skin and eyes to remain dark.

This gene was found to be MFSD12 in 2019. It occurs in many different breeds and causes dogs to be cream instead of red. It can also affect only the areas of a dog that would have been reddish and not affect the black areas, i.e. leaving a cream Afghan with a very black mask.

Pigment type

Several loci can be grouped as controlling when and where on a dog eumelanin or phaeomelanin are produced: the Agouti, Extension and Black loci. Intercellular signaling pathways tell a melanocyte which type of melanin to produce. Time-dependent pigment switching can lead to the production of a single hair with bands of eumelanin and phaeomelanin. Spatial-dependent signaling results in parts of the body with different levels of each pigment.
MC1R is a receptor on the surface of melanocytes. When active, it causes the melanocyte to synthesize eumelanin; when inactive, the melanocyte produces phaeomelanin instead. ASIP binds to and inactivates MC1R, thereby causing phaeomelanin synthesis. DEFB103 in turn prevents ASIP from inhibiting MC1R, thereby increasing eumelanin synthesis.

A (agouti) locus

The alleles at the A locus are related to the production of agouti signalling protein and determine whether an animal expresses an agouti appearance, and, by controlling the distribution of pigment in individual hairs, what type of agouti. There are four known alleles that occur at the A locus:

A^y = Fawn or sable. Tan with black whiskers and varying amounts of black-tipped and/or all-black hairs dispersed throughout. Fawn typically referring to dogs with clearer tan and sable to those with more black shading.
a^w = Wild-type agouti. Each hair with 3-6 bands alternating black and tan. Also called wolf sable.
a^t = Tan point. Black with tan patches on the face and underside - including saddle tan. Phaeomelanin production is limited to tan points; dark portions of the dog are solid eumelanin hairs.
a = Recessive black. Solid black, inhibition of phaeomelanin.
a^yt = Recombinant fawn has been identified in numerous Tibetan Spaniels and individuals in other breeds, including the Dingo. Its hierarchical position is not yet understood.

Most texts suggest that the dominance hierarchy for the A locus alleles appears to be as follows: A^y > a^w > a^t > a; however, research suggests the existence of pairwise dominance/recessiveness relationships in different families and not the existence of a single hierarchy in one family.

A^y is incompletely dominant to a^t, so that heterozygous individuals have more black sabling, especially as puppies and A^ya^t can resemble the a^wa^w phenotype. Other genes also affect how much black is in the coat.
a^w is the only allele present in many Nordic spitzes, and is not present in most other breeds.
a^t includes tan point and saddle tan, both of which look tan point at birth. Modifier genes in saddle tan puppies cause a gradual reduction of the black area until the saddle tan pattern is achieved.
a is only present in a handful of breeds. Most black dogs are black due to the K locus allele KB for dominant black.
E (extension) locus

The alleles at the E locus determine whether an animal expresses a melanistic mask, as well as determining whether an animal can produce eumelanin in its coat. There are three known, plus two more theorized, alleles that occur at the E locus:

E^m = Mask. The distribution of the pigments on the rest of the face and on the body is determined by the agouti locus.
E^G = Grizzle - also called domino.
E = Normal extension.
e^h = Cocker sable.
e = Recessive or clear fawn.

The dominance hierarchy for the E locus alleles appears to be as follows: E^m > E^G > E > e^h > e.

E allows normal expression of eumelanin and/or phaeomelanin according to the alleles present at the A and K loci.
E^m allows similar pattern expression to E except any tan areas on the mask area are replaced with eumelanin The mask can vary from the muzzle, to the face and ears, to a larger area with shading on the front and sides as in the Belgian Tervuren. The mask E^m is unaffected by the greying gene G and will remain dark in a G/- animal while the rest of the dog pales, such as in Kerry Blue Terriers. Some puppies are born with a mask which fades away within a few weeks of birth: these puppies do not have the E^m allele and their temporary mask is due to sabling.
An animal that is homozygous for e will express a red to yellow coat regardless of most alleles at other loci. Eumelanin is inhibited, so there can be no black hairs anywhere, even the whiskers. Pigment on the nose leather can be lost at the middle. In combination with a/a, an e/e dog will be white to off-white; in combination with U/U or U/u, an e/e dog will be off-white or cream.
The Grizzle allele has been studied only in Salukis and Afghan Hounds, the latter in which it is referred to as "Domino", but also occurs in the Borzoi. Its placement in the dominance hierarchy has not been solidified. Black with fawn-tan points is instead dark-sable with extended clear-tan points. Brindle affects fawn and sable areas, resulting in black with bridled-tan points or brindle with clear-tan points. Expression of E^G is dependent upon the animal being homozygous for a^t and not possessing E^m or K^B. E^G is theorized to have no effect on the phenotype of non-at/- nor K^B dogs and to be allelic to E^m and e.
The e^h sable extension allele has been studied only in English Cocker Spaniels and produces sable in the presence of dominant black K^B and tan point a^t/a^t. Its expression is dependent upon the animal not possessing E^m nor E nor being homozygous for e. e^h is theorized to be on the E locus and to have no effect on k^y/k^y dogs. All cocker spaniels are homozygous for a^t, so it is unknown how the gene may function in the presence of other A-series alleles.
K (dominant black) locus

The alleles at the K locus determine the coloring pattern of an animal's coat. There are three known alleles that occur at the K locus:

K^B = Dominant black
k^br = Brindle
k^y = Phaeomelanin permitted

The dominance hierarchy for the K locus alleles appears to be as follows: K^B > k^br > k^y.

K^B causes a solid eumelanin coat except when combined with e/e, E^h/- or E^m/- G/- and appropriate coat type
k^br causes the addition of eumelanin stripes to all tan areas of a dog except when combined with e/e or E^G/- a^ta^t non-K^B/-
k^y is wild-type allowing full expression of other genes.
Interactions of some genes with brindle

Alleles at the Agouti, Extension and Black loci determine the presence or absence of brindle and its location:

Patches and white spotting

The Merle, Harlequin, and Spotting loci contribute to patching, spotting, and white markings. Alleles present at the Merle and Harlequin loci cause patchy reduction of melanin to half, zero or both. Alleles present at the Spotting, Ticking and Flecking loci determine white markings.

H (harlequin) locus

DNA studies have isolated a missense mutation in the 20S proteasome β2 subunit at the H locus. The H locus is a modifier locus and the alleles at the H locus will determine if an animal expresses a harlequin vs merle pattern. There are two alleles that occur at the H locus:

H = Harlequin
h = Non-harlequin

H/h heterozygotes are harlequin and h/h homozygotes are non-harlequin. Breeding data suggests that homozygous H/H is embryonic lethal and that therefore all harlequins are H/h.

The Harlequin allele is specific to Great Danes. Harlequin dogs have the same pattern of patches as merle dogs, but the patches are white and harlequin affects eumelanin and phaeomelanin equally. H has no effect on non-merle m/m dogs.
M (merle) locus

The alleles at the M locus determine whether an animal expresses a merle pattern to its coat. There are two alleles that occur at the M locus:

M = Merle
m = Non-merle

M and m show a relationship of both co-dominance and no dominance.

On heterozygous M/m merles, black is reduced to silver on ~50% of the animal in semi-random patches with rough edges like torn paper. The fraction of the dog covered by merle patches is random such that some animals may be predominantly black and others predominantly silver. The merle gene is “faulty” with many merle animals having one odd patch of a third shade of grey, brown or tan.
On homozygous M/M “double merles”, black is replaced with ~25% black, ~50% silver and ~25% white, again with random variation, such that some animals have more black or more white.
Eumelanin is significantly reduced by M/m, but phaeomelanin is barely affected such that there will be little to no evidence of the merle gene on any tan areas or on an e/e dog. However, the white patches caused by M/M affect both pigments equally, such that a fawn double merle would be, on average, ~75% tan and ~25% white.
The merle gene also affects the skin, eye colour, eyesight and development of the eye and inner ear. Merle M/m puppies develop their skin pigmentation with speckled-edged progression, equally evident in e/e merles except when extensive white markings cause pink skin to remain in these areas. Blue and part-blue eyes are common.
Both heterozygosity and homozygosity of the merle gene are linked to a range of auditory and ophthalmologic abnormalities. Most M/m merles have normal-sized eyes and acceptably functional eyesight and hearing; most M/M double merles suffer from microphthalmia and/or partial to complete deafness.
S (spotting) locus

The alleles at the S locus determine the degree and distribution of white spotting on an animal's coat. There is disagreement as to the number of alleles that occur at the S locus, with researchers sometimes postulating a conservative two or, commonly, four alleles. The alleles postulated are:

S = Solid color/no white
sⁱ = Irish-spotting
s^p = Piebald
s^w = Extreme piebald spotting

S is incomplete dominant to s^p. DNA studies have not yet confirmed the existence of all four alleles, with some research suggesting the existence of at least two alleles and other research suggesting the possible existence of a third allele.

S/s^p heterozygotes usually have some white at birth on the chest and toes, which may be covered by ticking as the puppy grows. Animals of this genotype also commonly display pseudo-Irish spotting; in fact most Irish-spotted dogs are so due to heterozygosity for solid and piebald.
A few breeds are fixed for Irish spotting and therefore theorized to possess a different allele on the S locus or an allele on a completely separate gene.
It has been suggested that what appears to be the result of an s^w allele is in fact the result of plus and minus modifiers acting on one of the other alleles. It is thought that the spotting that occurs in Dalmatians is the result of the interaction of three loci giving them a unique spotting pattern not found in any other breed.
White spotting also affects skin, causing pink patches.
White spotting can cause blue eyes, microphthalmia, blindness and deafness; however, because pigmentation is generally retained around the eye/ear area, this is rare except among s^w/s^w dogs.

In 2014, a study found that a simple repeat polymorphism in the MITF-M Promoter is a key regulator of white spotting and that white color had been selected for by humans.

Albinism

C (colored) locus

Various people have postulated several alleles at the C locus and suggested some/all determine the degree to which an animal expresses phaeomelanin, a red-brown protein related to the production of melanin, in its coat and skin. Five alleles have been theorised to occur at the C locus:

C = Full color
c^ch = Chinchilla
c^e = Extreme dilution
c^b, c^p = Blue-eyed albino/Platinum
c^a = Albino

However, the C locus is now considered to be the gene SLC45A2
based on publications about albinism in Doberman Pinschers originally, and later in other small breeds. Please see also http://munster.sasktelwebsite.net/DogColor/white.html

Theoretical genes for color and pattern

There are additional theoretical loci thought to be associated with coat color in dogs. DNA studies are yet to confirm the existence of these genes or alleles but their existence is theorised based on breeding data:

F ([flecking]) locus

The alleles at the theoretical F locus are thought to determine whether an animal displays small, isolated regions of white in otherwise pigmented regions. Two alleles are theorised to occur at the F locus:

F = Flecked
f = Not flecked

It is thought that F is dominant to f.

G (progressive greying) locus

The alleles at the theoretical G locus are thought to determine if progressive greying of the animal's coat will occur. Two alleles are theorised to occur at the G locus:

G = Progressive greying
g = No progressive greying

It is thought that G is dominant to g.

The greying gene affects both eumelanin, and to a lesser extent phaeomelanin. In the presence of E^m/- the eumelanin mask will be unaffected and remain dark. Grey dogs are born fully coloured and develop the greying effect over several months. New hairs are grown fully coloured but their colour fades over time towards white. Greying is most evident in continuous-growing coats as individual hairs remain on the dog long enough for the colour to be lost. In short-haired dogs, hairs are shed out and re-grown before the colour has a chance to change.
Premature greying, in which the face/etc. greys at a young age is not caused by G and has not been proven to be genetic.
T (ticking) locus

The alleles at the theoretical T locus are thought to determine whether an animal displays small, isolated regions of pigment in otherwise s-spotted white regions. Two alleles are theorised to occur at the T locus:

T = Ticked
t = Not ticked

It is thought that T is dominant to t. Ticking may be caused by several genes rather than just one. Patterns of medium-sized individual spots, smaller individual spots, and tiny spots that completely cover all white areas leaving a roan-like or merle-like appearance can each occur separately or in any combination.

The effect of the ticking gene is to add back little coloured spots to areas made white by piebald spotting or the limited white markings of S/S animals. It does not affect white areas that were caused by a/a e/e or M/M or M/m H/h. The colour of the tick marks will be as expected or one shade darker. Tick marks are semi-random, so that they vary from one dog to the next and can overlap, but are generally present on the lower legs and heavily present on the nose.

displaying urajiro pattern.

U (urajiro) locus

The alleles at the theoretical U locus are thought to limit phaeomelanin production on the cheeks and underside. Two alleles are theorised to occur at the U locus:

U = Urajiro
u = Not urajiro

It is thought that U is dominant to u but incomplete with homozygosity required for complete dilution to off-white and heterozygotes displaying a darker cream. The urajiro pattern is expressed in the tan areas of any dog who is not e/e. In e/e dogs, the urajiro gene causes dilution of the entire dog to off-white or cream.

Miscolours in dog breeds

Miscolours occur quite rarely in dog breeds, because genetic carriers of the recessive alleles causing fur colours that don't correspond to the breed standard are very rare in the gene pool of a breed and there is an extremely low probability that one carrier will be mated with another. In case two carriers have offspring, according to the law of segregation an average of 25% of the puppies are homozygous and express the off-colour in the phenotype, 50% become carriers and 25% are homozygous for the standard colour. Usually off-coloured individuals are excluded from breeding, but that doesn't stop the inheritance of the recessive allele from carriers mated with standard-coloured dogs to new carriers.
In the breed Boxer large white markings in heterzygous carriers with genotype S sⁱ or S s^w belong to the standard colours, therefore extreme white Boxers are born regularly, some of them with health problems. The cream-white colour of the Shiba Inu is not caused by any spotting gene but by strong dilution of pheomelanin. Melanocytes are present in the whole skin and in the embryonic tissue for the auditory organs and eyes, therefore this colour is not associated with any health issues.
The occurrence of a dominant coat colour gene not belonging to the standard colours is a suspicion for crossbreeding with another breed. For example the dilute gen D in the suddenly appeared variety "silver coloured" Labrador Retriever might probably come from a Weimaraner. The same applies for Dobermann Pinschers suffering from Blue dog syndrome.

Genes associated with hair length, growth and texture

Every hair in the dog coat grows from a hair follicle, which has a three phase cycle, as in most other mammals. These phases are:

anagen, growth of normal hair;
catagen, growth slows, and hair shaft thins; and
telogen, hair growth stops, the follicle rests, and the old hair falls off—is shed. At the end of the telogen phase, the follicle begins the cycle again.

Most dogs have a double coat, each hair follicle containing 1-2 primary hairs and several secondary hairs. The primary hairs are longer, thicker and stiffer, and called guard hairs or outer coat. Each follicle also holds a variety of silky- to wiry-textured secondary hairs all of which are wavy, and smaller and softer than the primary hair. The ratio of primary to secondary hairs varies at least six-fold, and varies between dogs according to coat type, and on the same dog in accordance with seasonal and other hormonal influences. Puppies are born with a single coat, with more hair follicles per unit area, but each hair follicle contains only a single hair of fine, silky texture. Development of the adult coat begins around 3 months of age, and is completed around 12 months.
Research indicates that the majority of variation in coat growth pattern, length and curl can be attributed to mutations in four genes, the R-spondin-2 gene or RSPO2, the fibroblast growth factor-5 gene or FGF5, the keratin-71 gene or KRT71 and the melanocortin 5 receptor gene.
The wild-type coat in dogs is short, double and straight.

L (length) locus

The alleles at the L locus determine the length of the animal's coat. There are two known alleles that occur at the L locus:

L = Short coat
l = Long coat

L is dominant to l. A long coat is demonstrated when a dog has pair of recessive l alleles at this locus.
The dominance of L > l is incomplete, and L/l dogs have a small but noticeable increase in length and finer texture than closely related L/L individuals. However, between breeds there is significant overlap between the shortest L/L and the longest L/l phenotypes. In certain breeds, the coat is often of medium length and many dogs of these breeds are also heterozygous at the L locus.

W (wired) locus

The alleles at the W locus determine the coarseness and the presence of "facial furnishings". There are two known alleles that occur at the W locus:

W = Wire
w = Non-wire

W is dominant to w, but the dominance of W > w is incomplete. W/W dogs have coarse hair, prominent furnishings and greatly-reduced shedding. W/w dogs have the harsh wire texture, but decreased furnishings, and overall coat length and shedding similar to non-wire animals.
Animals that are homozygous for long coat and possess at least one copy of W will have long, soft coats with furnishings, rather than wirey coats.

R (curl) locus

The R Locus
The alleles at the R locus determine whether an animal's coat is straight or curly. There are two known alleles that occur at the R locus:

R = Straight
r = Curly

The relationship of R to r is one of no dominance. Heterozygotes have wavy hair that is easily distinguishable from either homozygote. Wavy hair is considered desirable in several breeds, but because it is heterozygous, these breeds do not breed true for coat type.
Corded coats, like those of the Puli and Komondor are thought to be the result of continuously growing curly coats with double coats, though the genetic code of corded dogs has not yet been studied. Corded coats will form naturally, but can be messy and uneven if not "groomed to cord" while the puppy's coat is lengthening.

Interaction of length and texture genes

These three genes responsible for the length and texture of an animal's coat interact to produce eight different phenotypes:

Breed exceptions to coat type

Breeds in which coat type Is not explained by FgF5, RSPO2 and KRT71 genes:

Genotypes of dogs of these 3 breeds are usually L/L or L/l, which does not match with their long-haired phenotype. The Yorkshire and Silky Terriers share common ancestry and likely share an unidentified gene responsible for their long hair. The Afghan Hound has a unique patterned coat that is long with short patches on the chest, face, back and tail. The Irish Water Spaniel may share the same pattern gene, although unlike the Afghan Hound, the IWS is otherwise genetically a long-haired breed.

Other related genes

Shedding gene

The alleles on the melanocortin 5 receptor gene determine whether an animal will have neotenous retention of a puppy-like coat type. The locus has not been assigned a common name or letter, but has been called the shedding gene or single coat gene. There are two known alleles that occur at this locus:

The mutant allele
The wildtype allele

The mutant allele is incomplete dominant. With respect to coat texture, shedding, follicle density and number of secondary hairs per follicle, heterozygotes closely resemble animals homozygous for the mutant allele, with minor differences. With respect to coat length and the prominence of fringing and furnishings, the relationship between the two alleles is more complex and dependent on the alleles present at the L and W loci:

In short-haired dogs, this gene causes the smooth coat type that is common in hounds and pointers. Coat length is significantly reduced in animals homozygous for the smooth-coat allele, and of intermediate length in heterozygotes. Heterozygosity for long coat dulls the effect on coat length. Typically, the undercoat is completely absent. Very few breeds have both smooth and non-smooth coat types.
In long-haired dogs, this gene causes fringed coats. Coat length is reduced on the body, but lengthened on the feathering. Fringed coats may have an unbristled undercoat. An overall long single coat requires additional lengthening modifier genes.
In wire-haired dogs, this gene causes short-wire coats only when homozygous, and has no effect on length when heterozygous. Short-wire coats may have a bristled undercoat.
In shaggy-haired dogs, this gene causes a soft single coat which varies by breed from cottony to silky. The minimal undercoat of fringed and short-wire coats originates from a different subset of secondary hairs, and is lost when a dog has the alleles for both long and wire hair.
In dogs with long curly coats with furnishings, this gene causes a single long curly coat with furnishings that will not cord, as proper formation of cords requires a double coat.

Remaining influences of length, texture and abundance of undercoat are likely polygenic.

Hairlessness gene

Some breeds of dog do not grow hair on parts of their bodies and may be referred to as "hairless". Examples of "hairless" dogs are the Xoloitzcuintli, the Peruvian Inca Orchid and the Chinese Crested. Research suggests that hairlessness is caused by a dominant allele of the forkhead box transcription factor gene, which is homozygous lethal. There are coated homozygous dogs in all hairless breeds, because this type of inheritance prevents the coat type from breeding true. The hairlessness gene permits hair growth on the head, legs and tail. Hair is sparse on the body, but present and typically enhanced by shaving, at least in the Chinese Crested, whose coat type is shaggy. Teeth are affected as well, and hairless dogs have incomplete dentition.
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The American Hairless Terrier is unrelated to the other hairless breeds and displays a different hairlessness gene. Unlike the other hairless breeds, the AHT is born fully coated, and loses its hair within a few months. The AHT gene, serum/glucocorticoid regulated kinase family member 3 gene, is recessive and does not result in missing teeth. Because the breed is new and rare, outcrossing to the parent breed is permitted to increase genetic diversity. These crosses are fully coated and heterozygous for AHT-hairlessness.

Ridgeback

Some breeds have an area of hair along the spine between the withers and hips that leans in the opposite direction to the surrounding coat. The ridge is caused by a duplication of several genes, and ridge is dominant to non-ridged.

Genetic testing and phenotype prediction

In recent years genetic testing for the alleles of some genes has become available. Software is also available to assist breeders in determining the likely outcome of matings.

Characteristics linked to coat colour

The genes responsible for the determination of coat colour also affect other melanin-dependent development, including skin colour, eye colour, eyesight, eye formation and hearing. In most cases, eye colour is directly related to coat colour, but blue eyes in the Siberian Husky and related breeds, and copper eyes in some herding dogs are not known to be related to coat colour.
The development of coat colour, skin colour, iris colour, pigmentation in back of eye and melanin-containing cellular elements of the auditory system occur independently, as does development of each element on the left vs right side of the animal. This means that in semi-random genes, the expression of each element is independent. For example, skin spots on a piebald-spotted dog will not match up with the spots in the dog's coat; and a merle dog with one blue eye can just as likely have better eyesight in its blue eye than in its brown eye.

Loci for coat colour, type and length

All known genes are on separate chromosomes, and therefore no gene linkage has yet been described among coat genes. However, they do share chromosomes with other major conformational genes, and in at least one case, breeding records have shown an indication of genes passed on together.

Gene	Chromosome	Symbol	Locus Name	Description	Share Chr
ASIP	24	A^y, a^w, a^t, a	Agouti	Sable, wolf-sable, tan point, recessive black; a^s disproven
TYRP1	11	B, b^s, b^d, b^c	Brown	Black, 3 x chocolate / liver
SLC45A2	4	C, c^aZ,c^aL	Colour	C = full color, 2 recessive alleles for types of albinism	STC2, GHR & GHR size
MLPH	25	D, d	Dilution	Black/chocolate, blue/isabella
MC1R	5	E^m, E^g, E, e^h, e	Extension	Black mask, grizzle, normal extension, cocker-sable, recessive red
PSMB7	9	H, h	Harlequin	Harlequin, non-harlequin
DEFB103	16	K^B, K^br, k^y	blacK	Dominant black, brindle, fawn/sable/banded hairs
FgF5	32	L, l	Longcoat	Short coat, long coat
PMEL	10	M, m	Merle	Double merle, merle, non-merle	HMGA2 size
KRT71	27	R, r	cuRlycoat	Straight coat, curly coat
MITF	20	S, sⁱ, s^p	Spotting	Solid, Irish spotting, piebald spotting; s^w not proven to exist
RSPO2	13	W, w	Wirecoat	Wire coat, non-wire coat
MC5R	1	n/a	Shedding	Single coat/minimal shedding, double coat/regular shedding	C189G bobtail
FOXI3	17	n/a	Hairless	Hairless, coated
SGK3	29	n/a	AHT	Coated, AHT-hairless
n/a	18	n/a	Ridgeback	Ridgeback, non-ridgeback
--	3	-	-	No coat genes yet identified here.	IGF1R size
--	7	-	-	No coat genes yet identified here.	SMAD2 size
--	15	-	-	No coat genes yet identified here.	IGF1 size

There are size genes on all 39 chromosomes, 17 classified as "major" genes. 7 of those are identified as being of key importance and each results in ~2x difference in body weight. IGF1, SMAD2, STC2 and GHR are dose-dependent with compact dwarfs vs leaner large dogs and heterozygotes of intermediate size and shape. IGF1R and HMGA2 are incomplete dominant with delicate dwarfs vs compact large dogs and heterozygotes closer to the homozygous dwarfed phenotypes. GHR is completely dominant, homozygous and heterozygous dwarfs equally small, larger dogs with a broader flatter skull and larger muzzle. It is believed that the PMEL/SILV merle gene is linked to the HMGA2 size gene, meaning that alleles are most often inherited together, accounting for size differences in merle vs non-merle litter mates, such as in the Chihuahua and Shetland Sheepdog.

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