Citing IMGT dynamic tools: Sanou G., Zeitoun G. et al. IMGT® at scale: FAIR, Dynamic and Automated Tools for Immune Locus Analysis, Nucleic Acids Research. 2025;,gkaf1024. doi: 10.1093/nar/gkaf1024 (Free Article) PMID: 41091930.
Program version: v. 

Add information about removed genes/alleles.
May 15th, 2025.

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.

Removed genes/alleles
If a gene/allele existence or name has to be changed, the old name or gene/allele would be deleted and its name won't be reused. They are kept in the gene table for historical reasons.
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.

Click on the strain name to get information on the strain (link to MGD).

The accession number AF037352 encompasses 105726 bp and includes the 5' part of the locus from TRGV7 to dowstream from TRGC3. AF021335 encompasses 62031 bp and includes the 3' part of the locus from TRGC2 to TRGC4. The mouse strain is not specified in these two accession numbers.

Gene table of house mouse (Mus musculus) TRGC IMGT group:
IMGT gene nameIMGT allele nameScore for
IMGT allele
confirmation		FctChromosomosal
localization		ExonsR T PrIMGT/LIGM-DB reference sequencesIMGT/LIGM-DB sequences from the literature
Clone namesStrainAccession
numbers		Positions
in the sequence		Secondary
accession
numbers		Clone namesStrainAccession
numbers		Positions
in the sequence
TRGC1 TRGC1*01 F 13A2 (10.0 cM) EX1
RTPr
++
 Cgamma1 BALB/c M13340 [3] ° MAP 29-358 Cgamma1 BALB/c AF037352 [8] 37358-37687
C57BL/6J IMGT000133 [1,2] 46062-46391
TRGC1 TRGC1*01 F 13A2 (10.0 cM) EX2
RTPr
++
 Cgamma1 BALB/c M13341 [3] ° MAP 26-70 Cgamma1 BALB/c AF037352 [8] 39119-39163
C57BL/6J IMGT000133 [1,2] 47823-47867
TRGC1 TRGC1*01 F 13A2 (10.0 cM) EX3
RTPr
++
 Cgamma1 BALB/c M13342 [3] ° MAP 18-157 Cgamma1 BALB/c AF037352 [8] 39731-39870
C57BL/6J IMGT000133 [1,2] 48435-48574
TRGC1 TRGC1*02 F 13A2 (10.0 cM) EX1 NOD/SCID IMGT000187 [6] MAP 45623-45952
TRGC1 TRGC1*02 F 13A2 (10.0 cM) EX2 NOD/SCID IMGT000187 [6] MAP 47384-47428
TRGC1 TRGC1*02 F 13A2 (10.0 cM) EX3 NOD/SCID IMGT000187 [6] MAP 47996-48135
TRGC2 TRGC2*01 F 13A2 (10.0 cM) EX1
RTPr
++
 C10.5 BALB/c M12834 [4] ° MAP 115-444 Cgamma2 BALB/c AF021335 [5] complement(6975-7304)
C57BL/6J IMGT000133 [1,2] complement(139181-139510)
TRGC2 TRGC2*01 F 13A2 (10.0 cM) EX2
RTPr
++
 C10.5 BALB/c M12835 [4] ° MAP 92-121 Cgamma2 BALB/c AF021335 [5] complement(5521-5551)
C57BL/6J IMGT000133 [1,2] complement(137728-137757)
TRGC2 TRGC2*01 F 13A2 (10.0 cM) EX3
RTPr
++
 C10.5 BALB/c M12836 [4] ° MAP 52-191 Cgamma2 BALB/c AF021335 [5] complement(4817-4956)
C57BL/6J IMGT000133 [1,2] complement(137022-137161)
TRGC2 TRGC2*02 F 13A2 (10.0 cM) EX1 NOD/SCID IMGT000187 [6] MAP complement(98032-98361)
TRGC2 TRGC2*02 F 13A2 (10.0 cM) EX2 NOD/SCID IMGT000187 [6] MAP complement(96577-96606)
TRGC2 TRGC2*02 F 13A2 (10.0 cM) EX3 NOD/SCID IMGT000187 [6] MAP complement(95871-96010)
TRGC3 TRGC3*01 ORF (4) 13A2 (10.0 cM) EX1 C7.5 BALB/c M12837 [4] ° 16-345
TRGC3 TRGC3*01 ORF (4) 13A2 (10.0 cM) EX2 C7.5 BALB/c M12838 [4] ° 98-142
TRGC3 TRGC3*01 ORF (4) 13A2 (10.0 cM) EX3 C7.5 BALB/c M12839 [4] ° 52-191
TRGC3 TRGC3*02 P (1) 13A2 (10.0 cM) EX1 Cgamma3 BALB/c AF037352 [8] 84146-84477
TRGC3 TRGC3*02 P (2) 13A2 (10.0 cM) EX2 Cgamma3 BALB/c AF037352 [8] 85930-85973
TRGC3 TRGC3*02 P (2) 13A2 (10.0 cM) EX3 Cgamma3 BALB/c AF037352 [8] 86541-86680
TRGC3 TRGC3*03 ORF (3) 13A2 (10.0 cM) EX1 C57BL/6J IMGT000133 [1,2] MAP 92844-93173
TRGC3 TRGC3*03 ORF (3) 13A2 (10.0 cM) EX2 C57BL/6J IMGT000133 [1,2] MAP 94603-94647
TRGC3 TRGC3*03 ORF (3) 13A2 (10.0 cM) EX3 C57BL/6J IMGT000133 [1,2] MAP 95214-95353
TRGC4 TRGC4*01 F (5) 13A2 (10.0 cM) EX1
RTPr
++
 Cgamma4 BALB/c AF021335 [5] MAP 44314-44643 Cgamma4 BALB/c L02339 [7] ° <1-76
C57BL/6J IMGT000133 [1,2] 176517-176846
TRGC4 TRGC4*01 F (5) 13A2 (10.0 cM) EX2A
RTPr
++
 Cgamma4 BALB/c L02340 [7] ° MAP 140-193 Cgamma4 BALB/c AF021335 [5] 49292-49344
C57BL/6J IMGT000133 [1,2] 181495-181548
TRGC4 TRGC4*01 F (5) 13A2 (10.0 cM) EX2B
RTPr
++
 Cgamma4 BALB/c L02341 [7] ° MAP 100-144 Cgamma4 BALB/c AF021335 [5] 50085-50129
C57BL/6J IMGT000133 [1,2] 182289-182333
TRGC4 TRGC4*01 F (5) 13A2 (10.0 cM) EX3
RTPr
++
 Cgamma4 BALB/c AF021335 [5] MAP 51956-52095 C57BL/6J IMGT000133 [1,2] 184160-184299
TRGC4 TRGC4*02 F 13A2 (10.0 cM) EX1 NOD/SCID IMGT000187 [6] MAP 127592-127921
TRGC4 TRGC4*02 F 13A2 (10.0 cM) EX2A NOD/SCID IMGT000187 [6] MAP 132578-132631
TRGC4 TRGC4*02 F 13A2 (10.0 cM) EX2B NOD/SCID IMGT000187 [6] MAP 133374-133418
TRGC4 TRGC4*02 F 13A2 (10.0 cM) EX3 NOD/SCID IMGT000187 [6] MAP 135245-135384
IMGT notes: ↑
  1. two nucleotide insertion (c at position 84394 and c at position 84419 in flat file, leading to frameshifts
  2. Pseudogene because of the INSERTION of 1 nucleotide (c) between codons 83/84 and the INSERTION of 1 nucleotide (c) between codons 91/92 lead to frameshifts in EX1.
  3. noncanonical DONOR-SPLICE in EX2
  4. Defective DONOR-SPLICE in EX2.
  5. The INSERTION of 1 nucleotide (c) between codons 83/84 and the INSERTION of 1 nucleotide (c) between codons 91/92 lead to frameshifts in EX1.
IMGT references: ↑
  1. Church,D.M. et al., Lineage-specific biology revealed by a finished genome assembly of the mouse, PLoS Biol (2009), PUBMED: 19468303
  2. Church,D.M. et al., Modernizing reference genome assemblies, PLoS Biol, vol. 9, no. 7, 2011, PUBMED: 21750661
  3. Garman R.D. et al., Diversity, rearrangement, and expression of murine T cell gamma genes, Cell, vol. 45, no. 5, 1986, pp. 733-742. DOI: 10.1016/0092-8674(86)90787-7
  4. Hayday A.C. et al., Structure, organization, and somatic rearrangement of T cell gamma genes, Cell, vol. 40, no. 2, 1985, pp. 259-269. DOI: 10.1016/0092-8674(85)90140-0
  5. Parlee M.J. et al., Genomic sequence and evolutionary analysis of the gamma 2 and gamma 4 clusters of the mouse TCR gamma locus, Unpublished.
  6. Schmid-Siegert E. et al., Reference mouse strain assemblies for BALB/c Nude and NOD/SCID mouse models, Unpublished.
  7. Vernooij B.M. et al., Organization of the murine T-cell receptor gamma locus, Genomics, vol. 17, no. 3, 1993, pp. 566-574. DOI: 10.1006/geno.1993.1373
  8. Zhou Q. et al., Organization, structure and evolutionary implication of 157kb of DNA of the murine T-cell receptor gamma locus, Unpublished.