Table 1. Mc1r coding sequence haplotypes in the domestic rock pigeon; amino acid numbering is identical to chicken.
| Nucleotide | G253A | G279A | G343A | T354C | A520G | C649T | T840C | ||
|---|---|---|---|---|---|---|---|---|---|
| Amino acid | V85M | Syn | D115N | Syn | S174G | R217C | Syn | ||
| Haplotype | Hom* | Het* | |||||||
| 1 | G | G | G | T | A | C | T | 45.3% (48) | 25.5%(27) |
| 2 | . | . | . | . | . | . | C | 10.4% (11) | 11.3% (12) |
| 3 | . | A | . | . | G | . | . | 8.5% (9) | 0.9% (1) |
| 4 | A | . | . | . | . | . | . | 2.8% (3) | 5.7% (6) |
| 5 | . | . | . | . | . | T | . | 2.8% (3) | 4.7% (5) |
| 6 | . | . | A | . | . | . | . | 0.9% (1) | 2.8% (3) |
| 7† | A | . | A | . | . | . | - | 0.9% (1) | 0% (0) |
| 8 | . | . | . | C | . | . | . | 0.9% (1) | 0% (0) |
| 9 | . | . | . | . | G | . | . | 0% (0) | 1.9% (2) |
| 10 | A | . | . | . | . | . | C | 0% (0) | 0.9% (1) |
| 11 | A | A | . | . | . | . | . | 0% (0) | 0.9% (1) |
| A§ 1 | . | G/A | . | . | A/G | C/T | . | (1) | |
| A 2 | . | G/A | . | . | A/G | . | . | (2) | |
| A 3 | G/A | . | . | . | . | . | T/C | (1) | |
| A 4 | . | . | . | . | . | . | - | (2) | |
| A 5 | G/A | . | . | . | . | . | - | (1) |
*
Hom, homozygous; Het, heterozygous; calculated as percentage of 106 birds with unambiguous haplotypes, numbers of birds in parentheses.
†
Sequence is missing at synonymous T840C, but other SNPs show this is a distinct haplotype.
§
A, ambiguous: samples either have missing data at synonymous sites or haplotypes could not be reliably phased due to more than one SNP in the sequence; number of individuals in each category indicated in parentheses at right.