IMGT Web resources > IMGT Repertoire (MH) > 1. Locus and genes

MHC genes by chromosomal localization (18.40-20.43 cM on chromosome 17)

There are 11 mouse MHC subclasses. The mouse (Mus musculus) MHC includes the "classical MHC class I" (MHC-Ia) that comprises the H2-D, H2-K and H2-L subclasses, and the "classical MHC class II" (MHC-IIa) that comprises H2-A, H2-E and H2-P subclasses. Other MHC with more specific functions or which do not present classical peptides include "nonclassical MHC-I (MHC-Ib) that comprises the H2-Q, H2-M and H2-T subclasses, the "nonclassical MHC-II"  (MHC-IIb) that comprises H2-DM and H2-DO subclasses.


MHC class (1) MHC subclass IMGT gene name IMGT gene definition Strand Chromosomal localization Size (bp) Localization source MGI entry Entrez Gene ID Other names
cM position bp position start bp position end
(2) H2-K H2-Ke1 18.40 MGI:95907 110131 H-2Ke1, Ke-1
(3) Tapbp + 18.41 34056423 34066235 9813 NCBI Build 37 MGI:1201689 21356 D17Wsu91e, Tapasin, TPN
(2) H2-Ke2 - 18.41 34075868 34077250 1383 NCBI Build 37 MGI:95908 14976
MHC-Ia H2-K2
(4)		 Major histocompatibility complex K2 - 18.43 34112135 34115735 3601 NCBI Build 37 MGI:95906 14974 H-2K1, H-2K1K, H-2K2, H2-K1
H2-K H2-K1 Major histocompatibility complex K1 - 18.44 34132973 34137229 4257 NCBI Build 37 MGI:95904 14973 H-2K
(2, 3) H2-Ke6 - 18.48 34162980 34165002 2023 NCBI Build 37 MGI:95911 14979 H-2Ke6, Ring2
(2) H2-Ke5 18.49 MGI:95910 110151 Ke-5; H-2Ke5; H2-Ke5
MHC-IIa H2-P H2-PA
(4)		 Major histocompatibility complex P alpha + 18.51 34221558 34222797 1240 NCBI Build 37 MGI:105314 15003 H2-Pa
H2-PB
(4)		 Major histocompatibility complex P beta 18.51 MGI:95926 15004 H-2Ab, H-2I, H-2Pb, H2-Ab3, Ia7, Pb, H2-Pb
MHC-IIb H2-O or H2-DO H2-DOA Major histocompatibility complex O alpha + 18.52 34229377 34232179 2803 NCBI Build 37 MGI:95924 15001 H-2Oa, H2-Oa
H2-DM H2-DMA Major histocompatibility complex DM alpha + 18.56 34272594 34276027 3434 NCBI Build 37 MGI:95921 14998 H-2Ma, H2-Ma, H2-Dma
H2-DMB2 Major histocompatibility complex DM beta 2 + 18.57 34282258 34288498 6241 NCBI Build 37 MGI:95923 15000 H-2Mb2, H2-Mb2, H2-DMb2
H2-DMB1 Major histocompatibility complex DM beta 1 + 18.58 34290136 34297174 7039 NCBI Build 37 MGI:95922 14999 H-2Mb1, H2-Mb1, H2-DMb1
(3) Psmb9 - 18.59 34319044 34324275 5232 NCBI Build 37 MGI:1346526 16912 Lmp-2, Lmp2
(3) TAP1 + 18.60 34324825 34333744 8920 NCBI Build 37 MGI:98483 21354 Abcb2, Ham-1, Ham1, MTP1, PSF-1, RING4, TAP, Tap-1
(3) Psmb8 + 18.61 34335344 34338211 2868 NCBI Build 37 MGI:1346527 282013 Lmp-7, Lmp7
(3) TAP2 + 18.62 34341025 34353266 12242 NCBI Build 37 MGI:98484 21355 ABC18, Abcb3, Ham-2, HAM2, Ham2, MTP2, PSF-2, PSF2, RING11, Tap-2, Y1
MHC-IIb H2-O or H2-DO H2-DOB Major histocompatibility complex O beta + 18.63 34375850 34382853 7004 NCBI Build 37 MGI:95925 15002
MHC-IIa H2-A H2-AB Major histocompatibility complex A beta + 18.64 34400185 34406355 6171 NCBI Build 37 MGI:103070 14961
H2-AA Major histocompatibility complex A alpha - 18.65 34419696 34424716 5021 NCBI Build 37 MGI:95895 14960
H2-E H2-EB1 Major histocompatibility complex E beta 1 + 18.66 34442843 34453144 10302 NCBI Build 37 MGI:95901 14969
H2-EB2 Major histocompatibility complex E beta 2 + 18.67 34462610 34477174 14565 NCBI Build 37 MGI:95902 381091
H2-EA Major histocompatibility complex E alpha - 18.70 34479878 34481588 1711 NCBI Build 37 MGI:95900 14968
MHC-Ia H2-D H2-D1 Major histocompatibility complex D1 + 19.09 35400039 35404440 4402 NCBI Build 37 MGI:95896 14964
H2-D2 Major histocompatibility complex D2 19.10 MGI:95897 110536
H2-D3 Major histocompatibility complex D3 19.11 MGI:95898 110553
H2-D4 Major histocompatibility complex D4 + 19.12 MGI:95899 14967
H2-L H2-L Major histocompatibility complex L 19.13 MGI:95912 14980
MHC-Ib H2-Q H2-Q1 Major histocompatibility complex Q1 + 19.14 35457507 35462364 4858 NCBI Build 37 MGI:95928 15006
H2-Q2
(5)		 Major histocompatibility complex Q2 + 19.15 35400039 35404442 4404 NCBI Build 37 MGI:95931 15013
H2-Q3 Major histocompatibility complex Q3 19.16 MGI:95932 110556
H2-Q4 Major histocompatibility complex Q4 + 19.16 35516576 35521559 4984 NCBI Build 37 MGI:95933 15015
H2-Q5 Major histocompatibility complex Q5 + 19.17 MGI:95934 15016
H2-Q6 Major histocompatibility complex Q6 + 19.18 35561822 35565306 3485 NCBI Build 37 MGI:95935 110557
H2-Q7 Major histocompatibility complex Q7 + 19.19 35576161 35580588 4428 NCBI Build 37 MGI:95936 15018
H2-Q8
(5)		 Major histocompatibility complex Q8 + 19.20 35531044 35532577 1534 NCBI Build 37 MGI:95937 15019
H2-Q9 Major histocompatibility complex Q9 + 19.21 35576100 35580588 4489 NCBI Build 37 MGI:95938 110558
H2-Q10 Major histocompatibility complex Q10 + 19.22 35607034 35611508 4475 NCBI Build 37 MGI:95929 15007
H2-Q11 Major histocompatibility complex Q11 19.23 MGI:95930 110620 Qa-11, Qa11
H2-Q13 Major histocompatibility complex Q12 19.23 MGI:106050 110633 Q13
H2-Q12 Major histocompatibility complex Q13 19.24 MGI:106051 110634 Q12
H2-Q14 Major histocompatibility complex Q14 19.24 MGI:106049 110632 Q14
H2-Q15 Major histocompatibility complex Q15 19.25 MGI:106048 110631 Q15
H2-M H2-M10-PS1
(4)		 Major histocompatibility complex M10-PS1 19.49 MGI:1276553 111251
H2-T H2-T Major histocompatibility complex T 19.60 MGI:95940 111463 H-2T
H2-T24 Major histocompatibility complex T24 - 19.72 36142640 36157505 14866 NCBI Build 37 MGI:95958 15042
H2-T23 Major histocompatibility complex T23 - 19.73 36166921 36169646 2726 NCBI Build 37 MGI:95957 15040
H2-T22 Major histocompatibility complex T22 - 19.74 36175352 36179692 4341 NCBI Build 37 MGI:95956 15039
H2-T21 Major histocompatibility complex T21 19.75 MGI:95955 110626
H2-T20 Major histocompatibility complex T20 19.76 MGI:95954 110625
H2-T19 Major histocompatibility complex T19 19.77 MGI:95952 110624
H2-T18
(5)		 Major histocompatibility complex T18 - 19.78 36322516 36327096 4581 NCBI Build 37 MGI:95950 15033
H2-T17 Major histocompatibility complex T17 - 19.79 36175354 36179687 4334 NCBI Build 37 MGI:95949 15032
H2-T16 Major histocompatibility complex T16 19.80 MGI:95948 110609
H2-M H2-M10-1
(5)		 Major histocompatibility complex M10-1 - 19.84 36459803 36463100 3298 NCBI Build 37 MGI:1276522 14985
H2-T H2-T15 Major histocompatibility complex T15 19.89 MGI:95947 110623
H2-T14 Major histocompatibility complex T14 19.90 MGI:95946 110608
H2-T13 Major histocompatibility complex T13 - 19.91 36216993 36221404 4412 NCBI Build 37 MGI:95945 15027
H2-T12 Major histocompatibility complex T12 19.92 MGI:95944 110622
H2-T11 Major histocompatibility complex T11 19.95 MGI:95943 110621
H2-T10 Major histocompatibility complex T10 - 19.96 36254035 36258389 4355 NCBI Build 37 MGI:95942 15024
H2-T9
(5)		 Major histocompatibility complex T9 - 19.97 36175354 36179687 4334 NCBI Build 37 MGI:95965 15051
H2-T8 Major histocompatibility complex T8 19.98 MGI:95964 110563
H2-T7 Major histocompatibility complex T7 19.99 MGI:95963 110562
H2-T6 Major histocompatibility complex T6 20.00 MGI:95962 110601
H2-T18rs Major histocompatibility complex T18rs 20.00 MGI:95951 110890 Tla-rs
H2-T5 Major histocompatibility complex T5 20.01 MGI:95961 110561
H2-T4 Major histocompatibility complex T4 20.02 MGI:95960 110560
H2-T3 Major histocompatibility complex T3 - 20.03 36322518 36327232 4715 NCBI Build 37 MGI:95959 15043
H2-T2 Major histocompatibility complex T2 20.04 MGI:95953 110559
H2-T1 Major histocompatibility complex T1 20.05 MGI:95941 15023
H2-M H2-M10-2 Major histocompatibility complex M10-2 - 20.20 36421224 36423385 2162 NCBI Build 37 MGI:1276525 110697
H2-M10-4
(5)		 Major histocompatibility complex M10-4 - 20.20 36595862 36599279 3418 NCBI Build 37 MGI:1276527 110699
H2-M10-PS2
(4)		 Major histocompatibility complex M10-PS2 20.20 MGI:1276552 111249 H2-M10-ps2, 5.4H
H2-M1
(5)		 Major histocompatibility complex M1 - 20.23 36806953 36809164 2212 NCBI Build 37 MGI:95913 110554 H-2M1, Mb1
H2-M7
(4)		 Major histocompatibility complex M7 20.25 MGI:95919 14995 H-2M7, H2-M7-ps
H2-M8
(4)		 Major histocompatibility complex M8 20.26 MGI:95920 110555 H2-M8-ps
H2-M9
(5)		 Major histocompatibility complex M9 - 20.27 36777351 36779611 2261 NCBI Build 37 MGI:1276570 14997 /
H2-M10-PS3
(4)		 Major histocompatibility complex M10-PS3 20.27 MGI:1276551 111250 7.2H, H2-M10-ps3
H2-M10-3 Major histocompatibility complex M10-3 - 20.295 36501950 36505361 3412 NCBI Build 37 MGI:1276524 110696 5.3H
H2-M11 Major histocompatibility complex M11 + 36684020 36686199 2180 NCBI Build 37 MGI:2676637 224754
H2-M10-5 Major histocompatibility complex M10-5 + 20.30 36909855 36913179 3325 NCBI Build 37 MGI:1276526 110698
H2-M6
(4)		 Major histocompatibility complex M6 - 20.31 37106140 37108341 2202 NCBI Build 37 MGI:95918 14994
H2-M4
(4)		 Major histocompatibility complex M4 - 20.32 37117578 37117859 282 NCBI Build 37 MGI:95916 14992
H2-M5 Major histocompatibility complex M5 - 20.33 37121006 37126482 5477 NCBI Build 37 MGI:95917 14993
H2-M3 Major histocompatibility complex M3 + 20.38 37407179 37411430 4252 NCBI Build 37 MGI:95915 14991
H2-M2 Major histocompatibility complex M2 - 20.43 37617796 37620474 2679 NCBI Build 37 MGI:95914 14990
IMGT notes:
  1. (1) Ib refers to non-classical MHC class I (MHC-Ib) and IIb refers to non-classical MHC class II (MHC-IIb).
  2. (2) Gene belonging to the Major histocompatibility complex K locus, but not belonging to the MHC subclass H2-K.
  3. (3) Gene that contribute to antigene presentation by MHC.
  4. (4) Pseudogene.
  5. (5) Divergence of chromosomal location of gene between cM and pb positions.
See also: