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"+" or "-" indicates if the gene sequences have been found (+) or not been found (-) rearranged (R), 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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IMGT gene name IMGT allele name Fct Chromosomal
localization
R T Pr IMGT/LIGM-DB locus reference sequences IMGT/LIGM-DB sequences from the literature
Breed Clone names Accession numbers Positions in the sequence
(J-GENE-UNIT)
Secondary accession numbers Breed Clone names Accession numbers Positions in the sequence
(J-GENE-UNIT)
IGHJ1-1 IGHJ1-1*01 ORF (1) 21q24 Holstein KT723008 [1] 320097-320187
IGHJ1-1*02 ORF (2) 21q24 AY149283 [2] (8) 564-655
IGHJ1-1*03 ORF (3) 21q24 Hereford NW_001494075 (8) complement(39812-39911)
IGHJ1-2 IGHJ1-2*01 ORF (4) 21q24 Holstein KT723008 [1] 320277-320370
IGHJ1-2*02 ORF (4) 21q24 AY149283 [2] (8) 745-838
IGHJ1-2*03 ORF (4) 21q24 Hereford NW_001494075 (8) complement(39638-39731)
IGHJ1-3 IGHJ1-3*01 ORF (5) 21q24 Holstein KT723008 [1] 320625-320713 Hereford NW_001494075 complement(39295-39383)
IGHJ1-3*02 ORF (5) 21q24 AY149283 [2] (8) 1093-1181
IGHJ1-4 IGHJ1-4*01 F 21q24 Holstein KT723008 [1] 320938-321023 AY149283 [2] 1406-1491
IGHJ1-4*02 F 21q24 Hereford NW_001494075 (8) complement(38985-39070)
IGHJ1-5 IGHJ1-5*01 P (6) 21q24 Holstein KT723008 [1] 321342-321391 (9) AY149283 [2] 1810-1859 (9)
Hereford NW_001494075 complement(38617-38666) (9)
IGHJ1-6 IGHJ1-6*01 F 21q24 Holstein KT723008 [1] 321851-321942 AY149283 [2] 2319-2410
DQ497629 [3] 16-107
DQ497630 [3] 16-107
Hereford NW_001494075 complement(38066-38157)
IGHJ2-1 IGHJ2-1*01 ORF (3) 21q24 Holstein KT723008 [1] 508911-509010 AY158087 [4,5] 171-270
IGHJ2-2 IGHJ2-2*01 ORF (4) 21q24 Holstein KT723008 [1] 509091-509184 AY158087 [4,5] 351-444
IGHJ2-3 IGHJ2-3*01 ORF (5) 21q24 Holstein KT723008 [1] 509437-509525 AY158087 [4,5] 697-785
IGHJ2-4 IGHJ2-4*01 F 21q24 Holstein KT723008 [1] 509717-509803 AF411242 [4] <1-30 (9)
AY158087 [4,5] 977-1063
IGHJ2-5 IGHJ2-5*01 P (6) 21q24 Holstein KT723008 [1] 510144-510193 (9) AF411242 [4] 365-414 (9)
AY158087 [4,5] 1398-1447 (9)
IGHJ2-6 IGHJ2-6*01 ORF (7) 21q24 Holstein KT723008 [1] 510631-510722 AF411242 [4] 852-943
AY158087 [4,5] 1885-1976
IMGT notes:
  1. (1) unexpected J-SPACER length (21 nt instead of 23 nt), non conserved consensus sequence, WGXG is replaced by WSXA
  2. (2) unexpected J-SPACER length (22 nt instead of 23 nt), non conserved consensus sequence, WGXG is replaced by WSXA
  3. (3) unexpected J-SPACER length (21 nt instead of 23 nt), non conserved consensus sequence, WGXG is replaced by CGXA, unexpected DONOR-SPLICE position
  4. (4) unexpected J-SPACER length (22 nt instead of 23 nt), non conserved consensus sequence, WGXG is replaced by WGXR
  5. (5) non conserved consensus sequence, WGXG is replaced by WGXR
  6. (6) no J-NONAMER, non conserved consensus sequence, WGXG is replaced by WGXE, no DONOR-SPLICE
  7. (7) unexpected J-SPACER length (22 nt instead of 23 nt), non conserved consensus sequence, WGXG is replaced by CGXG
  8. (8) Sequence not in locus
  9. (9) Positions in J-REGION
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] Hosseini A. et al. Int Immunol. 2004 Jun;16(6):843-52. Epub 2004 May 4. PMID: 15126417
  3. [3] Li M. et al. Unpublished.
  4. [4] Zhao Y. et al. J Immunol. 2002 Oct 15;169(8):4408-16. PMID: 12370374
  5. [5] Zhao Y. et al. J Biol Chem. 2003 Sep 12;278(37):35024-32. Epub 2003 Jun 26. PMID: 12829708
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