IMGT Repertoire (IG and TR)


Gene table: bovine (Bos taurus) IGHV

"+" 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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The Bos taurus IGH locus is localized on chromosome 21. It is not know if IGHV genes found in contigs located on chromosome 7 result from assembly errors or are orphons.
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 V-REGION 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. Moreover some duplications such as IGHV2-23 and IGHV3-44 in BosTau_2_chr7 may result from assembly errors.
Several pairs of genes have high percentage of identity of their V-REGION, reaching 100% of identity for the functional IGHV1-21*01 and IGHV1-33*01 genes and for the pseudogenes IGHV2-23*01 and IGHV2-35*01, and IGHV2-42*01 and IGHV2-45*01. Arbitrarily these sequences are assigned to the gene with the smallest number.

IMGT subgroup 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
(L-V-GENE-UNIT)		 Secondary accession numbers Breed Clone names Accession numbers Positions in the sequence
(L-V-GENE-UNIT)
IGHV1 IGHV1-7 IGHV1-7*01 F 21q24 + + Holstein KT723008 [1] MAP 254411..254889
IGHV1-7*02 F 21q24 + + Hereford BosTau_1_chr21 (16) complement(179859..180337)
IGHV1-10 IGHV1-10*01 F 21q24 + + Holstein KT723008 [1] MAP 240919..241389
IGHV1-10*02 F 21q24 + + 1 U55170 [2] (16) 135..>419 (17) 10 U55171 [2] (16) 135..>419 (17)
IGHV1-14 IGHV1-14*01 F 21q24 + + Holstein KT723008 [1] MAP 219315..219785
IGHV1-14*02 F 21q24 + + Hereford BosTau_1_chr21 (16) 90447..90917
IGHV1-14*03 F 21q24 + + 15 U55175 [2] (16) 135..>419 (17)
IGHV1-17 IGHV1-17*01 F 21q24 + + Holstein KT723008 [1] MAP 205890..206360
IGHV1-20 IGHV1-20*01 F 21q24 + + Holstein KT723008 [1] MAP 192395..192865
IGHV1-20*02 F 21q24 + + 16 U55169 [2] (16) 135..>419 (17)
IGHV1-21 IGHV1-21*01 F 21q24 + + Holstein KT723008 [1] MAP 182166..182636 Hereford NW_014650055 (16) 1586..2056
IGHV1-21*02 F 21q24 + + 6 U55172 [2] (16) 135..>419 (17) 9 U55173 [2] (16) 135..>419 (17)
IGHV1-21*03 F 21q24 11 U55174 [2] (16) 135..>419 (17)
IGHV1-25 IGHV1-25*01 F 21q24 + + Holstein KT723008 [1] MAP 161913..162383
IGHV1-27 IGHV1-27*01 F 21q24 + + Holstein KT723008 [1] MAP 151031..151501 Hereford BosTau_1_chr21 (16) 113522..113992
IGHV1-30 IGHV1-30*01 F 21q24 + + Holstein KT723008 [1] MAP 137522..137992 Hereford BosTau_2_chr7 (16) complement(354908..355378)
IGHV1-30*02 F 21q24 + + Hereford NW_945934 (16) 103..574
IGHV1-30*03 F 21q24 5 U55168 [2] (16) 135..>419 (17)
IGHV1-32 IGHV1-32*01 P (2) 21q24 Holstein KT723008 [1] MAP 125433..125903
IGHV1-32*02 P (2) 21q24 Hereford BosTau_2_chr7 (16) complement(366995..367465)
IGHV1-33 IGHV1-33*01 F 21q24 + + Holstein KT723008 [1] MAP 115170..115640
IGHV1-37 IGHV1-37*01 F 21q24 + + Holstein KT723008 [1] MAP 94916..95386 Hereford NW_938864 (16) 13083..13553
IGHV1-37*02 F 21q24 + + 8 U55164 [2] (16) 135..>419 (17)
IGHV1-39 IGHV1-39*01 F 21q24 Holstein KT723008 [1] MAP 84044..84514 Hereford BosTau_2_chr7 (16) complement(337187..337657)
NW_938864 (16) 2175..2645
IGHV1-39*02 F 21q24 4 U55166 [2] (16) 135..>419 (17)
IGHV1-39*03 F 21q24 + + 18 U55167 [2] (16) 135..>419 (17)
IGHV1-43 IGHV1-43*01 P (3) 21q24 Holstein KT723008 [1] MAP 50677..51142
IGHV1-46 IGHV1-46*01 P (3) 21q24 Holstein KT723008 [1] MAP 22560..23025
IGHV1-46*02 P (4) 21q24 Hereford BosTau_2_chr7 (16) 300834..301298
IGHV1S1 IGHV1S1*01 F NL 13 U55165 [2] (16) 135..>419 (17)
IGHV1S2 IGHV1S2*01 P (1) NL Hereford BosTau_2_chr7 (16) complement(324605..325094)
IGHV2 IGHV2-5 IGHV2-5*01 P (6) 21q24 Holstein KT723008 [1] MAP 263079..263655
IGHV2-5*02 P (7) 21q24 Hereford BosTau_1_chr21 (16) complement(146803..147379)
IGHV2-6 IGHV2-6*01 P (8) 21q24 Holstein KT723008 [1] MAP 256120..256661
IGHV2-6*02 P (8) 21q24 Hereford BosTau_1_chr21 (16) complement(178087..178628)
IGHV2-9 IGHV2-9*01 P (9) 21q24 Holstein KT723008 [1] MAP 242690..243023 Hereford BosTau_1_chr21 (16) 115285..115618
IGHV2-12 IGHV2-12*01 P (1) 21q24 Holstein KT723008 [1] MAP 228288..228734
IGHV2-12*02 P (1) 21q24 Hereford BosTau_1_chr21 (16) 99421..99862
IGHV2-13 IGHV2-13*01 P (6) 21q24 Holstein KT723008 [1] MAP 221336..221849 Hereford BosTau_1_chr21 (16) 92468..92981
IGHV2-16 IGHV2-16*01 P (9) 21q24 Holstein KT723008 [1] MAP 207656..207989
IGHV2-19 IGHV2-19*01 P (9) 21q24 Holstein KT723008 [1] MAP 194162..194495
IGHV2-23 IGHV2-23*01 P (4) 21q24 Holstein KT723008 [1] MAP 170312..170777 Hereford BosTau_2_chr7 (16) complement(219404..219869)
IGHV2-23*02 P (4) 21q24 Hereford BosTau_2_chr7 (16) 221983..222448
IGHV2-24 IGHV2-24*01 P (8) 21q24 Holstein KT723008 [1] MAP 163675..164148
IGHV2-26 IGHV2-26*01 P (9) 21q24 Holstein KT723008 [1] MAP 152794..153127
IGHV2-29 IGHV2-29*01 P (9) 21q24 Holstein KT723008 [1] MAP 139294..139627 Hereford BosTau_2_chr7 (16) complement(353271..353604)
NW_945934 (16) 1883..2216
IGHV2-31 IGHV2-31*01 P (4) 21q24 Holstein KT723008 [1] MAP 127226..127697
IGHV2-31*02 P (4) 21q24 Hereford BosTau_2_chr7 (16) complement(365203..365674)
IGHV2-35 IGHV2-35*01 P (4) 21q24 Holstein KT723008 [1] MAP 103314..103779 Hereford NW_938864 (16) 21148..21613
IGHV2-36 IGHV2-36*01 P (10) 21q24 Holstein KT723008 [1] MAP 96563..97150 AF304438 [3] (16) <1..>180 (17)
Hereford NW_938864 (16) 14730..15318
IGHV2-38 IGHV2-38*01 P (11) 21q24 Holstein KT723008 [1] MAP 85813..86152 Hereford BosTau_2_chr7 (16) complement(335549..335888)
NW_938864 (16) 3944..4283
IGHV2-42 IGHV2-42*01 P (12) 21q24 Holstein KT723008 [1] MAP 53913..54365 Hereford BosTau_2_chr7 (16) 304070..304522
IGHV2-45 IGHV2-45*01 P (12) 21q24 Holstein KT723008 [1] MAP 25795..26247
IGHV2S1 IGHV2S1*01 P (5) NL Hereford BosTau_2_chr7 (16) complement(322835..323310)
IGHV3 IGHV3-1 IGHV3-1*01 P (13) 21q24 Holstein KT723008 [1] MAP 472057..472523
IGHV3-2 IGHV3-2*01 P (13) 21q24 Holstein KT723008 [1] MAP 418464..418930
IGHV3-3 IGHV3-3*01 P (13) 21q24 Holstein KT723008 [1] MAP 365146..365612
IGHV3-4 IGHV3-4*01 P (13) 21q24 Holstein KT723008 [1] MAP 269274..269746
IGHV3-8 IGHV3-8*01 P (14) 21q24 Holstein KT723008 [1] MAP 249238..249527 (17)
IGHV3-11 IGHV3-11*01 P (13) 21q24 Holstein KT723008 [1] MAP 235527..235996 Hereford BosTau_1_chr21 (16) <108461..108586 (17)
IGHV3-15 IGHV3-15*01 P (13) 21q24 Holstein KT723008 [1] MAP 213951..214420 Hereford BosTau_1_chr21 (16) 85083..85552
IGHV3-18 IGHV3-18*01 P (14) 21q24 Holstein KT723008 [1] MAP 200708..200996 (17)
IGHV3-22 IGHV3-22*01 P (13) 21q24 Holstein KT723008 [1] MAP 176816..177285
IGHV3-28 IGHV3-28*01 P (14) 21q24 Holstein KT723008 [1] MAP 145845..146134 (17) Hereford BosTau_1_chr21 (16) 106801..107090 (17)
IGHV3-34 IGHV3-34*01 P (13) 21q24 Holstein KT723008 [1] MAP 109818..110287
IGHV3-40 IGHV3-40*01 P (13) 21q24 Holstein KT723008 [1] MAP 78710..79177 Hereford BosTau_2_chr7 (16) complement(342524..342991)
IGHV3-41 IGHV3-41*01 P (13) 21q24 Holstein KT723008 [1] MAP 63800..64271
IGHV3-44 IGHV3-44*01 P (13) 21q24 Holstein KT723008 [1] MAP 35681..36149 Hereford BosTau_2_chr7 (16) 285653..286121
complement(<225908..226137) (17)
IGHV3-44*02 P (13) 21q24 Hereford BosTau_1_chr21 (16) complement(140715..141184)
IGHV3-47 IGHV3-47*01 P (15) 21q24 Holstein KT723008 [1] MAP 3043..3506 Hereford BosTau_2_chr7 (16) complement(316624..317087)

MAP: Mapped reference sequences.

IMGT notes:
  1. (1) frameshifts in L-PART2 and in V-REGION
  2. (2) in frame STOP-CODONs in V-REGION
  3. (3) frameshift in FR3-IMGT
  4. (4) frameshifts in V-REGION
  5. (5) no ACCEPTOR-SPLICE
  6. (6) frameshifts in V-REGION, in frame STOP-CODON in FR2-IMGT
  7. (7) frameshifts in V-REGION, in frame STOP-CODON in FR2-IMGT, 2nd-CYS is replaced by in frame STOP-CODON
  8. (8) frameshift in CDR1-IMGT
  9. (9) frameshifts in L-PART1 and in L-PART2, deletions in V-REGION (approximately 48 AA are missing)
  10. (10) in frame STOP-CODON in L-PART1, frameshift in CDR1-IMGT
  11. (11) frameshift in L-PART2, deletions in V-REGION (approximately 40 AA are missing)
  12. (12) in frame STOP-CODON in FR1-IMGT, deletion in FR1-IMGT, frameshift in CDR1-IMGT
  13. (13) no INIT-CODON, frameshifts in V-REGION
  14. (14) no INIT-CODON, frameshifts in V-REGION, no V-NONAMER
  15. (15) no INIT-CODON, frameshifts in L-PART2 and in V-REGION
  16. (16) See caution note above the Gene table
  17. (17) Positions of V-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] Sinclair M.C. et al. J Immunol. 1997 Oct 15;159(8):3883-9. PMID:9378976
  3. [3] Gautier M. et al. Genet Sel Evol. 2001; 33(2): 191-200.
Created:
24/10/2017
Last updated:
22/09/2023
Authors:
Perrine Pégorier