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 names is based on informations provided by Linguiti G et al. (see reference)
Gene table of pig (Sus scrofa) TRGJ 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 (*)
TRGJ3-1 TRGJ3-1*01 ORF (1) 9 TJ Tabasco Duroc IMGT000232 [3] MAP [1] 266271-266352 WZS1 Wuzhishan IMGT000271 [2] 257947-258028
TRGJ4-1 TRGJ4-1*01 ORF (2) 9 TJ Tabasco Duroc IMGT000232 [3] MAP [1] 294921-295003 WZS1 Wuzhishan IMGT000271 [2] 286639-286721
TRGJ5-1 TRGJ5-1*01 F 9 TJ Tabasco Duroc IMGT000232 [3] MAP [1] 209675-209762 WZS1 Wuzhishan IMGT000271 [2] 201745-201832
TRGJ5-2 TRGJ5-2*01 F 9 TJ Tabasco Duroc IMGT000232 [3] MAP [1] 212521-212598 WZS1 Wuzhishan IMGT000271 [2] 204597-204674
TRGJ6-1 TRGJ6-1*01 ORF (3) 9 TJ Tabasco Duroc IMGT000232 [3] MAP [1] 234831-234916 WZS1 Wuzhishan IMGT000271 [2] 226842-226927
TRGJ6-2 TRGJ6-2*01 F 9 TJ Tabasco Duroc IMGT000232 [3] MAP [1] 238309-238386 WZS1 Wuzhishan IMGT000271 [2] 230334-230411
IMGT notes: ↑
  1. noncanonical J-MOTIF: FGKA instead of FGKG
  2. noncanonical J-MOTIF: FEXA instead of FGKG
  3. noncanonical J-HEPTAMER: agcagtg instead of cactgtg
IMGT references: ↑
  1. Linguiti, Giovanna et al. “The Organization of the Pig T-Cell Receptor γ (TRG) Locus Provides Insights into the Evolutionary Patterns of the TRG Genes across Cetartiodactyla.” Genes vol. 13,2 177. 19 Jan. 2022, DOI: 10.3390/genes13020177
  2. Luo Y. et al., Telomere-to-telomere genome assembly of a male pig provides insight into world-wide population structure and selection for body stature, Unpublished.
  3. Warr A. et al., An improved pig reference genome sequence to enable pig genetics and genomics research, Gigascience 9 (6) (2020), PUBMED: 32543654