Table 4.
Mismatches between donor and recipient observed only in the noncoding regionsa
| Allele 1 | Allele 2 | No. Observed | Variationb |
|---|---|---|---|
| A*01:01:01:01 | A*01:01:01:04 GenBank: KX707637 |
1 | Intron 3 1329 G>C |
| A*01:01:01:01 | A*01:01:01var GenBank: KX707636 |
1 | Intron 7 2769 T>C |
| A*02:01:01:01 | A*02:01:01:10 GenBank: KX707632 |
1 | Intron 2 542 A>C |
| A*02:01:01:01 | A*02:01:01:05 | 1 | Intron 3 with insertion at 1407 nucleotide 9 T>C |
| A*03:01:01:01 | A*03:01:01:10 GenBank: KX707635 |
1 | Intron 2 655 C>T |
| A*03:01:01:01 | A*03:01:01:09 GenBank: KX707638 |
1 | Intron 5 2150 T>A |
| A*03:01:01:01 | A*03:01:01:05 | 1 | Intron 6 2606 C>T |
| A*24:02:01:01 | 24:02:01:05 | 2 | Intron 3 1384 A>G |
| A*68:01:02:01 | A*68:01:02:02 | 2 | Intron 7 2770 G>A |
| B*08:01:01:01 | B*08:01:01:03 GenBank: KX707641 |
1 | Intron 3 1037 C>T |
| B*15:01:01:01 | B*15:01:01:06 GenBank: KX707642 |
2 | Intron 5 2324 G>T |
| B*15:01:01:01 | B*15:01:01:05 GenBank: KX707644 |
1 | Intron 6 2534 G>A, 2541 T>C |
| B*35:03:01 | B*35:03:01:02 GenBank: KX707640 |
1 | Intron 4 1915 C>T |
| B*44:02:01:03 | B*44:02:01:05 GenBank: KX707643 |
1 | Intron 3 1126 T>G |
| B*44:02:01:01 | B*44:02:01:04 GenBank: KX707639 |
1 | Intron 6 2560 A>G |
| C*02:02:02:01 | C*02:02:02:04 GenBank: KX711699 |
1 | Intron 2 639 A>G |
| C*03:04:01:01 | C*03:04:01:04 GenBank: KX711698 |
1 | Intron 6 2675 C>G |
| C*04:01:01:01 | C*04:01:01:06 | 1 | Intron 5 2206 A>G |
| C*04:01:01:01 | C*04:01:01:05 GenBank: KX711700 |
6 | Intron 1 152 G>A |
| C*04:01:01:06 | C*04:01:01:05 | 1 | Intron 1 152 G>A, intron 5 2206 G>A |
| C*05:01:01:02 | C*05:01:01:04 GenBank: KX711701 |
1 | Intron 3 1179 A>C, 1183 C>T, 1184 T>C |
| C*05:01:01:02 | C*05:01:01:05 GenBank: KX711703 |
1 | Intron 3 1310 G>A, 1321 T>C, 1323 A>G, 1353 T>G, 1355 G>A |
| C*07:01:01:01 | C*07:01:01:06 GenBank: KX711697 |
1 | Intron 5 2275 A>G |
| C*07:01:01:01 | C*07:01:01:07 GenBank: KX711702 |
1 | Intron 5 2322 G>A |
| DRB1*03:01:01 | DRB1*03:01:01var GenBank: KX756065 |
1 | Intron 2 5881–5883 GAC>ACT |
| DRB1*03:01:01 | DRB1*03:01:01var GenBank: KX756064 |
3 | Intron 2 6386 C>A |
| DRB1*07:01:01 | DRB1*07:01:01var GenBank: KX756066 |
1 | Intron 2 7298 T>C |
| DRB1*13:02:01 | DRB1*13:02:01var GenBank: KX756061 |
1 | Intron 1 5186 C>T |
| DRB1*14:54:01var1 GenBank: KX756060 |
DRB1*14:54:01var2 GenBank: KX756062 |
1 | Intron 2 6250 G>A; both alleles have 7172 intron 2 G>A variationc |
| DRB1*15:01:01:01 (02/03/04) | DRB1*15:01:01:01 (02/03/04)var1 GenBank: KX756063 |
1 | Intron 2 7380 A>C (var 1) |
| DRB1*15:01:01:01 (02/03/04)var1 | DRB1*15:01:01:01 (02/03/04)var2 GenBank: KX774264 |
1 | Intron 2 6237 A>G |
All variation has been confirmed by NGS sequencing of two independent PCR amplifications with the second sequence of the variant locus obtained in the absence of other HLA amplicons from that individual. It is still possible, however, that some variants result from artifacts such as the presence of reads from other co-amplified loci or alleles. For example, C*05:01:01var with 5 nucleotide changes shares this region with the second allele in the heterozygote, C*07:01:01:01, but the reads include C*05-specific residues at 5′ and 3′ ends.
Numbering is based on IMGT genomic sequence alignments with the reference allele (e.g., B*07:02:01 for HLA-B alignments) [26].
All DRB1*14:54 alleles sequenced in this study (22 alleles) carry intron 2 7172 G>A variation defining DRB1*14:54var1.