Citing IMGT databases: Manso T. et al. IMGT® databases, related tools and web resources through three main axes of research and development. Nucleic Acids Res. 2022 Jan 7;50(D1):D1262-D1272. doi: 10.1093/nar/gkab1136 PMID: 34875068 Free PMC article.
Program version: v. 

Add the possibility to obtain a gene table per strain (for mouse now and for other species later) and allotypes/isotypes for human.
September 25th, 2024.

Bibliographical references in alphabetic order, small design changes and addition of "NL" for non-localized gene.
June 14th, 2024.

Addition of 'Score for IMGT allele confirmation' as well as NCBI TPA accession numbers.
September 20th, 2023.

Implementation of the dynamic gene table.

Gene table legend:

"+" 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 in 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.

IMGT allele confirmation: A scoring system is employed to indicate the number of IMGT/LIGM-DB reference sequences and other sequences from the literature in which an IG or TR gene allele has been identified and annotated.

A single star ()
indicates that an IG or TR gene allele is annotated in the reference sequence only.
Two stars ()
indicate that an IG or TR gene allele is annotated in its reference sequence and in one sequence from the literature.
Three stars ()
indicate that an IG or TR gene allele is annotated in its reference sequence and in at least two sequences from the literature.
In the Excel file, the stars are represented by the plus symbol (+).
Click on:
  • IMGT gene name to get the corresponding IMGT/GENE-DB entry (link).
  • IMGT allele name to see the corresponding Alignments of alleles (link).
  • Accession number to get the corresponding IMGT/LIGM-DB entry (link).
  • MAP: mapped sequences. Click to access GENE-DB «LOCALIZATION IN GENOME ASSEMBLIES» (link).
  • [number] to access the corresponding IMGT reference (popover).
  • (number) to see the corresponding IMGT note (popover).
Options:
  • You can show/hide columns (), download data () or put the table in fullscreen () using buttons.
See also (IMGT Scientific chart):
Select a species and a IMGT group to get the gene table:
Only IMGT available species/group are shown in the drop-down list.
The gene table can take several seconds to appear, please be patient.
Gene table of dog (Canis lupus familiaris) TRBJ IMGT group:
IMGT gene nameIMGT allele nameScore for
IMGT allele
confirmation		FctChromosomosal
localization		R T PrIMGT/LIGM-DB reference sequencesIMGT/LIGM-DB sequences from the literature
Clone namesBreedAccession
numbers		Positions
in the sequence
(J-GENE-UNIT)
or J-REGION (*)		Secondary
accession
numbers		Clone namesBreedAccession
numbers		Positions
in the sequence
(J-GENE-UNIT)
or J-REGION (*)
TRBJ1-1 TRBJ1-1*01 F 16
RTPr
++
 CM000016.3 boxer BK065025✤ [2,3] MAP 244425-244500 boxer AAEX02035465 [1] complement(49933-50008)
TRBJ1-2 TRBJ1-2*01 F 16 CM000016.3 boxer BK065025✤ [2,3] MAP 244560-244631 boxer AAEX02035465 [1] complement(49802-49873)
TRBJ1-3 TRBJ1-3*01 P (1) 16
RTPr
++
 CM000016.3 boxer BK065025✤ [2,3] MAP 245162-245239 boxer AAEX02035465 [1] complement(49194-49271)
TRBJ1-4 TRBJ1-4*01 ORF (2) 16
RTPr
++
 CM000016.3 boxer BK065025✤ [2,3] MAP 245744-245821 boxer AAEX02035465 [1] complement(48612-48689)
TRBJ1-5 TRBJ1-5*01 F 16 CM000016.3 boxer BK065025✤ [2,3] MAP 245998-246075 boxer AAEX02035465 [1] complement(48358-48435)
TRBJ1-6 TRBJ1-6*01 F 16
RTPr
++
 CM000016.3 boxer BK065025✤ [2,3] MAP 246459-246539 HE653929 [4] (5) <1-41 *
boxer AAEX02035465 [1] complement(47894-47974)
TRBJ2-1 TRBJ2-1*01 F (3) 16
RTPr
++-
 HE653929 [4] (6) 7302-7379
TRBJ2-2 TRBJ2-2*01 F 16
RTPr
++-
 HE653929 [4] (6) 7482-7560
TRBJ2-3 TRBJ2-3*01 F 16
RTPr
++-
 HE653929 [4] (6) 7733-7809
TRBJ2-4 TRBJ2-4*01 ORF (4) 16
RTPr
---
 HE653929 [4] (6) 7885-7961
TRBJ2-5 TRBJ2-5*01 F 16
RTPr
++-
 HE653929 [4] (6) 8024-8100
TRBJ2-6 TRBJ2-6*01 F 16
RTPr
++-
 HE653929 [4] (6) 8540-8613

✤ : NCBI accession number that correspond to a previously internal IMGT accession number. See the correspondence table.

IMGT notes: ↑
  1. in frame STOP-CODON in J-REGION
  2. non conserved consensus sequence, FGXG is replaced by FAXG
  3. STOP-CODON at position 1 (first 5' codon of germline J-REGION) may disappear during rearrangements
  4. noncanonical J-NONAMER: tgctgcgca instead of ggtttttgt
  5. Chromosomal localization not known
  6. Sequence not in locus reference sequence (assembly CanFam3.1)
IMGT references: ↑
  1. Lindblad-Toh K. et al., Genome sequence, comparative analysis and haplotype structure of the domestic dog, Nature, vol. 438, no. 7069, 2005, pp. 803-819. DOI: 10.1038/nature04338
  2. Manso,T. et al., IMGT(R) databases, related tools and web resources through three main axes of research and development, Nucleic Acids Res, vol. 50, no. D1, 2022, pp. D1262-D1272. PUBMED: 34875068
  3. Martin J. et al., Comprehensive annotation and evolutionary insights into the canine (Canis lupus familiaris) antigen receptor loci, Immunogenetics, vol. 70, no. 4, 2018, pp. 223-236. PUBMED: 28924718
  4. Mineccia M. et al., New insight the genomic structure of the dog T cell receptor beta chain locus as drawn from the expression analysis, Unpublished.