Table 2.
Mafa haplotype definitions for 100 extended MHC haplotypes defined by MHC-MAFA-NIAID1 STR patterns. STR allele sizes for each extended MHC haplotype are listed in Supplemental Figure 2. The number of each haplotype observed (# Obs.) was inferred based on animals with STR patterns matching the 100 extended MHC haplotypes characterized in this study (n = 1146). Mafa class I and class II transcripts associated with each of the abbreviated Mafa-A, Mafa-B, and Mafa-DRB regional haplotypes are listed in Supplemental Figures 4 - 6. Individual Mafa-DQA1, DQB1, DPA1, and DPB1 alleles associated with each extended MHC haplotype are listed in the final four columns
| MHC-MAFA-NIAID1- | # Obs. | Mafa-A | Mafa-B | Mafa-DRB | Mafa-DQA | Mafa-DQB | Mafa-DPA | Mafa-DPB |
|---|---|---|---|---|---|---|---|---|
| 000005 | 124 | A007.01.03 | B008.02.02 | DRW33.01.01 | 24:02:01 | 18:08 | 02:13:02 | 15:02 |
| 000002 | 62 | A010.01.05 | B008.02.01 | DR104.06.03 | 01:03:05 | 06:12 | 02:13:02 | 15:02 |
| 000008 | 45 | A060.02.01 | B015.05.01 | DR103.02.02 | 01:24:01 | 06:13:01 | 04:02 | 03:04:01 |
| 000001 | 35 | A018.01.03 | B018.02.01 | DR103.01.02 | 24:05 | 18:05 | 02:11 | 10:01 |
| 000010 | 35 | A022.01.06 | B147.03.01 | DR103.06.01 | 01:03:02 | 06:18 | 07:07 | 19:06:01 |
| 000025 | 34 | A054.01.01 | B013.08.01 | DR401.02.01 | 01:21 | 06:24:02 | 04:02 | 03:04:01 |
| 000007 | 30 | A103.01.01 | B015.01.02 | DR103.20.01 | 01:03:02 | 06:18 | 04:02 | 03:04:01 |
| 000006 | 29 | A004.01.02 | B045.02.02 | DR103.12.01 | 01:07:01 | 06:14 | 04:02 | 03:06 |
| 000048 | 29 | A003.01.01 | B028.07.01 | DRW03.01.02 | 24:02:04 | 18:08 | 09:02 | 17:01:02 |
| 000009 | 28 | A008.01.02 | B004.03.01 | DRW21.01.01 | 05:10 | 17:02:01 | 02:14:01 | 01:05 |
| 000022 | 26 | A088.01.02 | B028.06.01 | DRW04.02.01 | 01:15:02 | 06:43 | 02:05 | 15:03 |
| 000028 | 26 | A010.01.05 | B028.05.01 | DR103.18.01 | 24:05 | 18:05 | 02:13:02 | 15:02 |
| 000132 | 25 | A089.01.03 | B056.04.01 | DR110.04.01 | 05:03:01 | 16:01 | 02:05 | 15:03 |
| 000018 | 23 | A043.01.04 | B076.02.01 | DRW04.01.01 | 01:12 | 06:14 | 07:04:01 | 21:02 |
| 000003 | 22 | A038.01.03 | B024.01.01 | DR103.06.01 | 01:03:02 | 06:18 | 07:01 | 21:02 |
| 000019 | 21 | A007.01.03 | B002.01.02 | DR103.05.01 | 05:01:01 | 17:03 | 02:18 | 06:06:02 |
| 000072 | 20 | A019.01.02 | B090.03.01 | DRW33.01.01 | 24:04 | 18:05 | 07:02 | 19:03 |
| 000013 | 18 | A043.01.05 | B004.01.01 | DR103.06.01 | 01:03:05 | 06:12 | 02:13:02 | 15:02 |
| 000035 | 17 | A058.01.03 | B083.02.02 | DRW01.04.01 | 01:11 | 06:07:01 | 02:15:01 | 10:01 |
| 000037 | 15 | A068.01.01 | B008.02.01 | DRW05.01.01 | 24:03 | 18:01:02 | 02:27 | 01:01:01 |
| 000117 | 15 | A019.01.01 | B028.01.04 | DR104.13.01 | 24:07 | 18:28 | 02:01 | 25:03 |
| 000036 | 14 | A019.01.01 | B052.02.01 | DRW01.02.03 | 23:01:01 | 18:31 | 04:02 | 03:04:01 |
| 000058 | 14 | A010.01.03 | B056.04.02 | DRW04.01.01 | 01:12 | 06:14 | 02:15:01 | 10:01 |
| 000063 | 14 | A010.01.05 | B017.02.01 | DR103.05.01 | 05:01:01 | 17:03 | 02:09:02 | 15:09 |
| 000004 | 13 | A101.01.01 | B016.01.02 | DRW04.01.01 | 01:12 | 06:08 | 02:15:01 | 10:01 |
| 000031 | 12 | A054.01.02 | B069.07.01 | DRW04.01.01 | 01:12 | 06:14 | 02:09:02 | 15:09 |
| 000043 | 12 | A088.01.01 | B184.01.03 | DRW01.04.01 | 01:11 | 06:07:01 | 02:26 | 25:03 |
| 000032 | 14 | A019.02.01 | B090.01.01 | DRW21.02.01 | 23:01:01 | 18:04 | 11:01 | 16:01 |
| 000061 | 11 | A018.01.05 | B147.04.02 | DRW20.04.02 | 26:01:02 | 15:01:02 | 02:13:02 | 15:02 |
| 000064 | 11 | A070.01.01 | B181.02.01 | DR103.06.01 | 01:03:02 | 06:18 | 07:07 | 19:06:01 |
| 000130 | 11 | A060.01.03 | B101.02.01 | DR103.06.01 | 01:03:02 | 06:18 | 02:13:02 | 15:02 |
| 000052 | 10 | A053.01.01 | B004.01.02 | DRW21.02.01 | 23:01:01 | 18:04 | 07:03 | 19:06:02 |
| 000076 | 11 | A135.01.01 | B008.02.03 | DRW01.04.01 | 01:11 | 06:07:01 | 13:03 | 04:01 |
| 000077 | 10 | A066.01.04 | B017.03.01 | DR104.05.02 | 01:06:01 | 06:11:02 | 09:02 | 17:01:02 |
| 000011 | 8 | A076.01.01 | B028.06.03 | DR107.02.01 | 24:05 | 18:05 | 04:02 | 03:04:03 |
| 000024 | 9 | A043.01.07 | B045.02.01 | DR103.06.01 | 01:03:02 | 06:18 | 02:15:01 | 10:01 |
| 000027 | 9 | A091.01.01 | B147.02.01 | DRW03.01.03 | 24:02:03 | 18:08 | 02:26 | 25:04 |
| 000030 | 9 | A070.01.01 | B013.08.01 | DRW21.02.01 | 23:01:01 | 18:04 | 09:02 | 17:01:02 |
| 000047 | 9 | A053.01.01 | B004.01.02 | DRW01.02.03 | 24:03 | 18:04 | 04:02 | 03:04:01 |
| 000097 | 9 | A018.01.04 | B004.01.01 | DRW01.03.01 | 05:01:01 | 17:03 | 02:15:01 | 10:01 |
| 000131 | 9 | A063.01.04 | B104.01.02 | DRW03.01.02 | 24:02:03 | 18:08 | 13 g | 04:01 |
| 000016 | 8 | A101.02.01 | B004.01.03 | DR107.03.01 | 24:13 | 18:06 | 02:13:02 | 15:02 |
| 000020 | 8 | A041.01.02 | B047.01.02 | DR104.10.04 | 26:06 | 17:07:01 | 02:16 | 06:08 |
| 000029 | 8 | A018.01.07 | B083.02.02 | DR104.08.02 | 01:09:01 | 06:01:02 | 11:01 | 16:01 |
| 000078 | 8 | A092.02.02 | B056.04.02 | DR107.04.01 | 01:11 | 06:07:01 | 07:01 | 21:02 |
| 000079 | 8 | A041.01.02 | B047.01.02 | DR503.01.01 | 05:02:02 | 17:06:02 | 02:14:01 | 01:05 |
| 000053 | 7 | A003.01.01 | B194.01.01 | DR103.19.01 | 01:04 | 06:01:01 | 02:06:02 | 07:01 |
| 000081 | 7 | A088.01.01 | B056.07.01 | DR304.09.01 | 01:03:06 | 06:12:02 | 02:14:01 | 01:05 |
| 000023 | 6 | A010.01.05 | B013.09.01 | DR110.03.01 | 01:24:02 | 06:13:01 | 02:13:02 | 15:02 |
| 000044 | 6 | A067.01.03 | B090.02.02 | DR103.19.01 | 01:07:01 | 06:14 | 11:01 | 16:01 |
| 000050 | 6 | A006.01.01 | B013.08.01 | DRW33.01.01 | 24:04 | 18:05 | 13 g | 04:01 |
| 000067 | 6 | A067.01.01 | B048.02.01 | DR104.06.03 | 01:03:05 | 06:12 | 02:13:02 | 15:02 |
| 000082 | 6 | A089.01.02 | B015.06.01 | DRW21.01.01 | 05:10 | 17:02:01 | 07:07 | 19:07 |
| 000085 | 6 | A077.01.01 | B101.03.01 | DRW01.05.01 | 01:13 | 06:17:02 | 02:14:01 | 01:05 |
| 000091 | 6 | A088.01.03 | B151.02.01 | DR103.06.02 | 01:27 | 06:18 | 13:02 | 06:06:01 |
| 000033 | 5 | A097.01.02 | B002.03.01 | DRW21.01.01 | 05:10 | 17:02:01 | 02:15:01 | 10:01 |
| 000034 | 5 | A010.03.01 | B056.06.03 | DRW04.01.01 | 01:12 | 06:14 | 02:09:02 | 15:09 |
| 000049 | 5 | A053.01.01 | B015.07.01 | DR110.01.02 | 05:16 | 17:11 | 04:02 | 02:02 |
| 000065 | 5 | A070.01.01 | B101.03.01 | DR110.04.01 | 05:03:01 | 16:01 | 13:01 | 09:02 |
| 000083 | 5 | A010.01.06 | B013.08.01 | DRW01.04.02 | 01:11 | 06:07:01 | 02:16 | 06:08 |
| 000086 | 5 | A024.02.01 | B104.02.04 | DRW04.01.01 | 01:12 | 06:14 | 02:15:01 | 10:01 |
| 000109 | 5 | A008.01.03 | B101.03.02 | DR103.02.02 | 01:24:02 | 06:13:01 | 07:07 | 19:06:01 |
| 000134 | 5 | A010.01.05 | B013.08.01 | DR103.12.01 | 01:07:01 | 06:14 | 07:04:01 | 20:01 |
| 000135 | 5 | A010.01.05 | B052.02.02 | DR304.08.01 | 01:28 | 06:20 | 02:51 | 10:01 |
| 000136 | 5 | A070.01.01 | B076.01.02 | DR304.09.01 | 01:03:06 | 06:12:02 | 02:11 | 10:01 |
| 000015 | 4 | A079.01.01 | B004.01.01 | DRW01.02.02 | 24:11 | 18:13 | 04:02 | 03:04:01 |
| 000040 | 4 | A067.01.02 | B012.01.01 | DR107.03.01 | 24:13 | 18:06 | 07:04:01 | 21:01 |
| 000051 | 4 | A043.01.08 | B017.02.02 | DRW01.03.01 | 01:11 | 06:07:01 | 13:03 | 04:01 |
| 000056 | 4 | A063.01.02 | B075.01.01 | DR110.04.01 | 05:03:01 | 16:01 | 13:01 | 09:02 |
| 000057 | 4 | A007.01.04 | B012.01.01 | DR103.06.01 | 01:03:02 | 06:18 | 07:07 | 19:06:01 |
| 000059 | 4 | A056.03.01 | B004.02.01 | DRW04.01.01 | 01:12 | 06:14 | 07:04:01 | 20:01 |
| 000060 | 4 | A067.01.03 | B147.04.01 | DRW01.02.03 | 23:01:01 | 18:31 | 02:27 | 01:01:01 |
| 000087 | 4 | A018.01.06 | B099.01.01 | DRW03.01.02 | 24:02:03 | 18:08 | 02:26 | 15:06 |
| 000090 | 4 | A010.01.04 | B013.08.01 | DR103.19.01 | 01:07:01 | 06:14 | 13:03 | 04:01 |
| 000098 | 4 | A004.01.02 | B090.02.01 | DRW07.01.01 | 23:01:03 | 18:31 | 02:15:01 | 15:02 |
| 000102 | 4 | A004.01.02 | B056.06.02 | DRW01.04.01 | 01:11 | 06:07:01 | 02:16 | 06:08 |
| 000104 | 4 | A088.01.01 | B184.01.02 | DRW04.01.01 | 01:12 | 06:14 | 02:15:01 | 10:01 |
| 000107 | 4 | A043.01.06 | B028.06.02 | DR304.10.01 | 26:15 | 18 g | 07:01 | 21:02 |
| 000115 | 4 | A033.01.03 | B045.01.03 | DR104.12.01 | 01:06:01 | 06:11 | 13:03 | 04:01 |
| 000125 | 4 | A076.01.01 | B028.06.03 | DR107.02.01 | 24:05 | 18:05 | 04:02 | 03:04:03 |
| 000128 | 4 | A004.01.02 | B056.06.03 | DR104.08.02 | 01:09:01 | 06:01:02 | 11:01 | 16:01 |
| 000045 | 3 | A076.01.01 | B013.08.01 | DR104.12.01 | 01:06:01 | 06:11 | 02:27 | 01:01:01 |
| 000062 | 3 | A066.01.02 | B203.01.01 | DR107.04.02 | 01:11 | 06:07:01 | 02:14:01 | 01:05 |
| 000075 | 3 | A070.01.01 | B056.06.01 | DRW01.04 | 01 g1 | 06 g3 | 02 g7 | DPB-unk |
| 000105 | 3 | A079.01.01 | B076.01.01 | DR103.21.01 | 24 g1 | 18:08 | 04:02 | 03 g |
| 000118 | 3 | A101.01.01 | B101.04.01 | DRW21.01.01 | 05:10 | 17:02:01 | 07:07 | 19:07 |
| 000119 | 3 | A067.01.01 | B013.10.01 | DR107.04.01 | 01:11 | 06:07:01 | 04:02 | 03:04:02 |
| 000121 | 3 | A023.01.01 | B018.02.02 | DR103.05.01 | 05:01:01 | 17:03 | 02:11 | 10:01 |
| 000126 | 3 | A088.01.01 | B045.02.03 | DRW01.04.01 | 01:11 | 06:07:01 | 02:11 | 10:01 |
| 000012 | 2 | A066.01.05 | B083.05.01 | DRW04.03.01 | 01:03:02 | 06:36 | 02:15:01 | 10:01 |
| 000092 | 2 | A080.01.01 | B083.02.02 | DR107.03.01 | 24:13 | 18:06 | 07:04:01 | 15:02 |
| 000111 | 2 | A032.02.02 | B015.07.01 | DR503.01.01 | 24:11 | 18 g1 | 07:03 | 19 g |
| 000129 | 2 | A056.03.02 | B012.01.01 | DRW01.02.03 | 23:01:01 | 18:31 | 02:50 | 01:01:01 |
| 000133 | 2 | A092.01.03 | B101.04.01 | DR103.20.01 | 24:04 | 18:05 | 04:02 | 03:04:01 |
| 000026 | 1 | A006.01.02 | B002.04.01 | DRW21.01.01 | 05:16 | 17:02:01 | 07:07 | 03:06 |
| 000039 | 1 | A045.01.03 | B052.01.01 | DR107.02.01 | 24:05 | 18:05 | 07:02 | 19:03 |
| 000116 | 1 | A062.01.01 | B008.03.01 | DR103.01.02 | DQA-unk | 18:01:01 | 09:02 | 10:01 |
| 000127 | 1 | A004.01.02 | B069.08.01 | DRW01.06.01 | 01:03:02 | 06:20 | DPA-unk | 04:01 |
| 000137 | 1 | A004.01.02 | B083.05.02 | DRW21.02.01 | 23:01:01 | 18:04 | 09:02 | 17:01:02 |
| 000138 | 1 | A018.01.03 | B018.02.01 | DRW33.01 | 24 g1 | 18:08 | 02 g3 | 15 g3 |