Table 2.
MHC class II genes and alleles in five horse ELA haplotypes
| ELA Haplotype1 | DRA | DRB1 | DQA1 | DQB1 | DQA2 | DQB2 | DQA3 | DQB3 | DRB2 | DRB3 |
|---|---|---|---|---|---|---|---|---|---|---|
| A3 | *00101 | *00101 | *00101 | *00101 | *00101 | *00101 | *00101 | *00101 | *002012 *00201 2 |
*00101 |
| A2 | *00101 | *00201 | *00201 | *00201 | ND3 | *00201 | ND4 | *00201 | *00301 | *001010001 |
| A5 | *00102 | *00301 | *00202 | *00301 | *00101 | *00301 | ND4 | *00301 | *00101 | *00101 |
| A9 | *00103 | *00401 | *00301 | *00401 | *00201 | *00401 | ND4 | ND3 | *00401 | *00101 |
| A10 | *00104 | *00501 | *00401 | *00501 | *00202 | *00501 | ND3 | ND3 | *00102 | *00201 |
| Types5/Alleles | 1/4 | 5/5 | 4/5 | 5/5 | 2/3 | 5/5 | 1/1 | 3/3 | 3/5 | 2/2 |
1
Details of horses of these haplotypes is provided in Table 1. Order of genes corresponds to ECA20 chromosome order.
2
DRB2*00101 was found in the ELA-A3a sub-haplotype. DRB2*00201 was found in the ELA-A3c sub-haplotype (Tables 1, S1, S3, and Figure S1).
3
ND – not detected in RT-PCR assays; few reads found in Illumina genome sequence (see Results for details).
4
ND - not detected in RT-PCR assays; stop codons found in Illumina genome sequence (see Results for details).
5
Types refer to alleles that have more than four predicted amino acid differences when compared to another sequence from the same locus.