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 signify the frequency of occurrences of a specific allele within sequence data. A single star () indicates that no instances of the allele have been identified in the literature. Two stars () indicate the discovery of one literature sequence containing the allele. If more than one literature sequence is found to contain the allele, it is designated with three stars (). 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 sheep (Ovis aries) TRDJ 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 (*)
TRDJ1 TRDJ1*01 F 7
RTPr
++
 CM008478.1 Rambouillet BK064708✤ [1,3] MAP 2746919-2746999 Altamurana AJ277510 [2] 44-124
TRDJ1-1*01 Texel OviAri_1_chr7 complement(218962-219042)
TRDJ2 TRDJ2*01 ORF (1) 7 CM008478.1 Rambouillet BK064708✤ [1,3] MAP 2754145-2754227 TRDJ1-3*01 Texel OviAri_1_chr7 complement(211699-211781)
TRDJ3 TRDJ3*01 F 7
RTPr
++
 CM008478.1 Rambouillet BK064708✤ [1,3] MAP 2756521-2756607 Altamurana AJ277511 [2] 56-142
TRDJ1-4*01 Texel OviAri_1_chr7 complement(209319-209405)
TRDJ4 TRDJ4*01 F 7
RTPr
++
 CM008478.1 Rambouillet BK064708✤ [1,3] MAP 2752696-2752772 Altamurana AJ277512 [2] 71-147
TRDJ1-2*01 Texel OviAri_1_chr7 complement(213154-213230)

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

IMGT notes: ↑
  1. noncanonical J-HEPTAMER: aatggtg instead of agctgtg, noncanonical J-MOTIF: FGXE instead of FGXG
IMGT references: ↑
  1. 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
  2. Massari S. et al., Genomic organization of sheep TRDJ segments and their expression in the delta-chain repertoire in thymus, Immunogenetics, vol. 52, no. 1-2, 2000, pp. 1-8. DOI: 10.1007/s002510000243
  3. Pegorier P et al., IMGT((R)) Biocuration and Comparative Analysis of Bos taurus and Ovis aries TRA/TRD Loci, Genes (Basel), vol. 12, no. 1, 2020, pp. E30-. PUBMED: 33379283