IMGT Repertoire (IG and TR)


Gene table: bovine (Bos taurus) IGHC

"+" or "-" indicates if the gene sequences have been found (+) or not been found (-) transcribed (T) and/or translated into protein (Pr). Arbitrarily that information is shown on the first line of each gene when the data have been confirmed by several studies.

Functionality is shown between parentheses, (F) and (P), when the accession number refers to rearranged genomic DNA or cDNA and the corresponding germline gene has not yet been isolated.
Functionality is shown between brackets, [F] and [P], when the accession number refers to genomic DNA, but not known as being germline or rearranged.

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The Bos taurus IGH locus is localized on chromosome 21.
Localization on chromosome 21q24 for the sequences other than KT723008 needs to be confirmed as their allele assignment is only based on sequence alignment of the exons with those of KT723008.
The hits to sequences other than KT723008 are given for completeness but information on the positions in the contig and chromosomal localization of these sequences should be taken with great caution owing to the uncertainties regarding the genome assembly, and to the difficulty of assigning genes due to the duplications in the IGH locus.

IMGT gene name IMGT allele name Fct Serological
markers		 Chromosomal
localization		 T Pr IMGT/LIGM-DB locus reference sequences IMGT/LIGM-DB sequences from the literature
Breed Clone names Exons Accession numbers Positions in the sequence Secondary accession numbers Breed Clone names Accession numbers Positions in the sequence
IGHA IGHA*01 F 21q24 + Holstein CH1 KT723008 [1] MAP 652007..652312 Brown Swiss (9) AF109167 [2] (19) 68..373
H-CH2 (17) KT723008 [1] MAP 652493..652822 Brown Swiss (9) AF109167 [2] (19) 554..883
CH3 (including CHS) KT723008 [1] MAP 653011..653402 Brown Swiss (9) AF109167 [2] (19) 1072..1463
M KT723008 [1] MAP 655709..655893
IGHD IGHD*01 P (1) 21q24 + CH1 AF411244 [3] (19) 77..400
H1 AF411244 [3] (19) 540..629
H2 AF411245 [3] (19) 116..181
CH2 AF411245 [3] (19) 429..752
CH3 AF411245 [3] (19) 857..1177
M1 AF411246 [3] (19) 53..199
M2 AF411246 [3] (19) 416..421
IGHD*02 ORF (2) 21q24 + Holstein CH1 KT723008 [1] MAP 525572..525895
H1 KT723008 [1] MAP 526036..526125
H2 KT723008 [1] MAP 527527..527592
CH2 KT723008 [1] MAP 527840..528163
CH3 KT723008 [1] MAP 528268..528588
CHS KT723008 [1] MAP 531422..531606
M1 KT723008 [1] MAP 532785..532927
M2 KT723008 [1] MAP 533143..533148
IGHD*03 (F) 21q24 + Holstein CH1 AF411240 [3] c (s) <1..324
H1 AF411240 [3] c (s) 325..414
H2 AF411240 [3] c (s) 414..480
CH2 AF411240 [3] c (s) 481..804
CH3 AF411240 [3] c (s) 805..1125
M1 AF411240 [3] c (s) 1126..1269
M2 AF411240 [3] c (s) 1270..1275
IGHDD1P IGHDD1P*01 P (3) 21q24 Holstein CH1 KT723008 [1] MAP 336407..336730
H1 KT723008 [1] MAP 336871..336960
H2 KT723008 [1] MAP 338469..338534
CH2 KT723008 [1] MAP 338782..339106
CH3 KT723008 [1] MAP 339211..339531
CHS KT723008 [1] MAP 342358..342542
M1 KT723008 [1] MAP 343704..343846
M2 KT723008 [1] MAP 344061..344066
IGHDD1P*02 P (4) 21q24 Hereford CH1 NW_001494075 (19) complement(24147..24470)
H1 NW_001494075 (19) complement(23917..24006)
H2 NW_001494075 (19) complement(22347..22408)
CH2 NW_001494075 (19) complement(21775..22099)
CH3 NW_001494075 (19) complement(21350..21670)
CHS NW_001494075 (19) complement(18339..18524)
M1 NW_001494075 (19) complement(17114..17256)
M2 NW_001494075 (19) complement(16894..16899)
IGHDD2P IGHDD2P*01 P (5) 21q24 Holstein CH1 KT723008 [1] MAP 399736..399835
H1 KT723008 [1] MAP 399976..400065
CH2 KT723008 [1] MAP 400732..401055
CH3 KT723008 [1] MAP 401160..401480
CHS KT723008 [1] MAP 403717..403900
M1 KT723008 [1] MAP 405056..405198
M2 KT723008 [1] MAP 405414..405419
IGHDD3P IGHDD3P*01 P (5) 21q24 Holstein CH1 KT723008 [1] MAP 453228..453327
H1 KT723008 [1] MAP 453468..453557
CH2 KT723008 [1] MAP 454224..454547
CH3 KT723008 [1] MAP 454652..454972
CHS KT723008 [1] MAP 457229..457412
M1 KT723008 [1] MAP 458568..458710
M2 KT723008 [1] MAP 458926..458931
IGHE IGHE*01 F 21q24 + Brown Swiss (10) CH1 U63640 [4] (19) 264..548
CH2 U63640 [4] (19) 667..990
CH3 U63640 [4] (19) 1078..1398
CH4 (including CHS) U63640 [4] (19) 1471..1808
IGHE*02 F 21q24 + Holstein CH1 KT723008 [1] MAP 636798..637088
CH2 KT723008 [1] MAP 637207..637530
CH3 KT723008 [1] MAP 637618..637941
CH4 (including CHS) KT723008 [1] MAP 638014..638351
M1 KT723008 [1] MAP 640600..640733
M2 KT723008 [1] MAP 640826..640918
IGHG1 IGHG1*01 F 21q24 + 8.10 CH1 X16701 [5] (19) 170..460 M25278
H X16701 [5] (19) 789..827 M25278
CH2 X16701 [5] (19) 954..1283 M25278
CH3 (including CHS) X16701 [5] (19) 1364..1689 M25278
IGHG1*02 (F) 21q24 + mouse/bovine
heterohybridoma
(B/MT.4A.17.H5.A5)		 CH1 X62916 [6] (19) c(s) 445..735
H X62916 [6] (19) c(s) 736..774
CH2 X62916 [6] (19) c(s) 775..1104
CH3 (including CHS) X62916 [6] (19) c(s) 1105..1431
IGHG1*03 (F) 21q24 Holstein-Friesian 2 (15) CH1 S82409 [7] (19) c(s) 1..294
H S82409 [7] (19) c(s) 295..330
CH2 S82409 [7] (19) c(s) 331..660
CH3 (including CHS) S82409 [7] (19) c(s) 661..987
IGHG1*04 F 21q24 + Holstein CH1 KT723008 [1] MAP 591535..591825
H KT723008 [1] MAP 592157..592192
CH2 KT723008 [1] MAP 592319..592648
CH3 (including CHS) KT723008 [1] MAP 592731..593056
M1 KT723008 [1] MAP 594605..594738
M2 KT723008 [1] MAP 597452..597532
IGHG2 IGHG2*01 F (6) g2a (8) 21q24 + 2.26 CH1 M36946 [8] (19) 108..398 X06703
H M36946 [8] (19) 730..768 X06703
CH2 M36946 [8] (19) 906..1225 X06703
CH3 (including CHS) M36946 [8] (19) 1307..1632 X06703
IGHG2*02 F g2a (8) 21q24 + 32.2.8 (11) CH1 X16702 [5] (19) 122..415 M25279
H X16702 [5] (19) 744..782 M25279
CH2 X16702 [5] (19) 920..1240 M25279
CH3 (including CHS) X16702 [5] (19) 1320..1645 M25279
IGHG2*03 (F) g2a (8) 21q24 Holstein-Friesian 3 (16) CH1 S82407 [7] (19) c(s) 1..291
H S82407 [7] (19) c(s) 292..330
CH2 S82407 [7] (19) c(s) 331..651
CH3 (including CHS) S82407 [7] (19) c(s) 652..978
IGHG2*04 F 21q24 + Holstein CH1 KT723008 [1] MAP 614645..614935
H KT723008 [1] MAP 615267..615305
CH2 KT723008 [1] MAP 615443..615763
CH3 (including CHS) KT723008 [1] MAP 615846..616171
M1 KT723008 [1] MAP 617720..617853
M2 KT723008 [1] MAP 618020..618100
IGHG3 IGHG3*01 F 21q24 Brown Swiss G3a (12,13) CH1 U63638 [9] (19) 122..414
H1 (18) U63638 [9] (19) 415..481
H2 U63638 [9] (19) 772..816
CH2 U63638 [9] (19) 946..1269
CH3 (including CHS) U63638 [9] (19) 1436..1761
IGHG3*02 F 21q24 + Brown Swiss G3b (12,13) CH1 U63639 [9] (19) 166..458
H1 (18) U63639 [9] (19) 459..525
H2 U63639 [9] (19) 816..860
CH2 U63639 [9] (19) 990..1313
CH3 (including CHS) U63639 [9] (19) 1396..1721
IGHG3*03 F 21q24 Holstein CH1 KT723008 [1] MAP 563429..563721
H1 (18) KT723008 [1] MAP 563722..563788
H2 KT723008 [1] MAP 564079..564123
CH2 KT723008 [1] MAP 564253..564576
CH3 (including CHS) KT723008 [1] MAP 564788..565113
M1 KT723008 [1] MAP 566674..566807
M2 KT723008 [1] MAP 566971..567051
IGHGP IGHGP*01 P (7) 21q24 psi-gamma CH1 M36947 [8] (19) 181..468
H M36947 [8] (19) 831..875
CH2 M36947 [8] (19) 1005..1328
CH3 (including CHS) M36947 [8] (19) 1412..1736
IGHM1 IGHM1*01 F 21q24 + Brown Swiss (14) CH1 U63637 [10] (19) 262..585
CH2 U63637 [10] (19) 660..992
CH3 U63637 [10] (19) 1244..1558
CH4 (including CHS) U63637 [10] (19) 1691..2082
M1 U63637 [10] (19) 3994..4109
M2 U63637 [10] (19) 4203..4208
IGHM1*02 F 21q24 Holstein CH1 KT723008 [1] MAP 326979..327302 P522 DQ497629 [11] (19) 4463..>4616
CH2 KT723008 [1] MAP 327377..327709
CH3 KT723008 [1] MAP 327962..328276
CH4 (including CHS) KT723008 [1] MAP 328408..328799
M1 KT723008 [1] MAP 330718..330833
M2 KT723008 [1] MAP 330935..330940
IGHM1*03 F 21q24 Hereford CH1 NW_001494075 (19) complement(33544..33867)
CH2 NW_001494075 (19) complement(33137..33469)
CH3 NW_001494075 (19) complement(32571..32885)
CH4 (including CHS) NW_001494075 (19) complement(32048..32439)
M1 NW_001494075 (19) complement(30019..30134)
M2 NW_001494075 (19) complement(29912..29917)
IGHM1*04 F 21q24 P542 CH1 DQ497630 [11] (19) 4420..>4572
IGHM2 IGHM2*01 F 21q24 + CH1 AY158087 [3,12] (19) 7819..8142 AY230207 [12] (19) <1..308
CH2 AY230207 [12] (19) 384..716 AY158087 [3,12] (19) 8218..>8259
CH3 AY230207 [12] (19) 968..1282
CH4 (including CHS) AY230207 [12] (19) 1414..1805
M1 AY230207 [12] (19) 3722..>3799
IGHM2*02 F 21q24 + Holstein CH1 KT723008 [1] MAP 515831..516154
CH2 KT723008 [1] MAP 516230..516562
CH3 KT723008 [1] MAP 516814..517128
CH4 (including CHS) KT723008 [1] MAP 517260..517651
M1 KT723008 [1] MAP 519565..519680
M2 KT723008 [1] MAP 519782..519787

c: cDNA sequence.
(s): transcript of a secreted chain.
MAP: Mapped reference sequences.

IMGT notes:
  1. (1) frameshift in M1
  2. (2) noncanonical DONOR-SPLICE: ngc instead of ngt
  3. (3) frameshift in CH2, in frame STOP-CODON in CHS
  4. (4) frameshift in H2, in CH2 and in CHS
  5. (5) deletions in CH1, no H2, frameshift in CHS
  6. (6) This sequence was incorrectly designated a pseudogene by Symons et al., 1987 [8] because in their first sequence the nucleotide G at position 907/908 at the start of the CH2 was missing, leading to a frameshift. This sequence has been re-sequenced by Symons et al., 1989 [5] and the nucleotide has been resolved, permitting reclassification of the sequence as a functional gene
  7. (7) in frame STOP-CODON and frameshift in CH3
  8. (8) The gamma chains are encoded, for their constant region, by the IGHG genes. g2a and g2b refer to polymorphic gamma 2 chains characterized serologically. The g2a and g2b chains were previously designated as IgG2a(A1) and IgG2a(A2) respectively, whereas the gamma 3 chain was designated as IgG2b/IgG3 [7]
  9. (9) Subcloned from phage 25 containing the bovine IGHA gene, provided by Katherine L. Knight [13]
  10. (10) Subcloned from phage clone 24 containing the bovine IGHE gene, provided by Katherine L. Knight [13]
  11. (11) Subcloned from phage clone 32.2 containing the bovine IGHG2 gene, provided by Katherine L. Knight [13]
  12. (12) Subcloned from phage clone 46.2 containing the bovine IGHG3 gene, provided by Katherine L. Knight [13]
  13. (13) The two alleles IGHG3*01 and IGHG3*02 differ from each other by a 6 amino acid substitution in the coding region and a 84 base pair (bp) insertion in the intron between the CH2 and CH3 exons of IGHG3*01 [8]. This insertion contains a 41 bp duplication
  14. (14) Subcloned from phage 15 containing the bovine IGHM gene, provided by Katherine L. Knight [13]
  15. (15) KABAT accession number: KADBID 027168
  16. (16) KABAT accession number: KADBID 027169
  17. (17) In the IGHA gene, the hinge and CH2 are joined in a single exon
  18. (18) Twenty-two additional amino acids are encoded by the 3' end of CH1. As this region is rich in proline (7 aa out of 22), it is likely to be part of the structural hinge [9]
  19. (19) See caution note above the Gene table
IMGT references:
  1. [1] Ma L. et al. J Immunol. 2016 May 15;196(10):4358-66. doi: 10.4049/jimmunol.1600158. Epub 2016 Apr 6. PMID:27053761
  2. [2] Brown W.R. et al., Immunology, 91, 1-6 (1997). PMID:9203958
  3. [3] Zhao Y. et al. J Immunol. 2002 Oct 15;169(8):4408-16. PMID:12370374
  4. [4] Mousavi M. et al., Immunology, 92, 369-373 (1997). PMID:9486110
  5. [5] Symons D.B. et al., Mol. Immunol., 26, 841-850 (1989). PMID:2513487
  6. [6] Jackson T. et al., Mol. Immunol., 29, 667-676 (1992). PMID:1584233
  7. [7] Kacskovics I. and Butler J.E., Mol. Immunol., 33, 189-195 (1996). PMID:8649440
  8. [8] Symons D.B. et al., J. Immunogenet., 14, 273-283 (1987). PMID:3141517
  9. [9] Rabbani H. et al., Immunogenetics, 46, 326-331 (1997). PMID:9218535
  10. [10] Mousavi M. et al., Immunology, 93, 581-588 (1998). PMID:9659232
  11. [11] Li M. et al. Unpublished.
  12. [12] Zhao Y. et al. J Biol Chem. 2003 Sep 12;278(37):35024-32. Epub 2003 Jun 26. PMID:12829708
  13. [13] Knight K.L. et al., J. Immunol., 140, 3654-3659 (1988). PMID:3361125
Acknowledgments:
  • We thank John E. Butler (University of Iowa, USA) for sending us, for comments, the Nomenclature proposals for bovine immunoglobulin classes and subclasses (September 1997 - March 1999).
Created:
23/09/1999
Last updated:
22/09/2023
Authors:
Christèle Martinez-Jean, Perrine Pégorier and Joumana Jabado-Michaloud