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) TRDD IMGT group:
IMGT sub­groupIMGT 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
(D-GENE-UNIT)
or D-REGION (*)
Secondary
accession
numbers
Clone namesBreedAccession
numbers
Positions
in the sequence
(D-GENE-UNIT)
or D-REGION (*)
TRDDTRDD1 TRDD1*01 ORF (1) 7
RTPr
++
CM008478.1 Rambouillet BK064708 [1,2] MAP 2652416-2652491
TRDDTRDD1 TRDD1*02 ORF (1) 7
RTPr
++
Texel OviAri_1_chr7 (5) complement(303034-303109)
TRDDTRDD2 TRDD2*01 F 7
RTPr
++
CM008478.1 Rambouillet BK064708 [1,2] MAP 2664598-2664676 TRDD1*01 Texel OviAri_1_chr7 complement(290954-291032)
TRDDTRDD3 TRDD3*01 ORF (2) 7 CM008478.1 Rambouillet BK064708 [1,2] MAP 2670682-2670757 Texel OviAri_1_chr7 complement(284874-284949)
TRDDTRDD4 TRDD4*01 F 7
RTPr
++
CM008478.1 Rambouillet BK064708 [1,2] MAP 2680423-2680504 TRDD2*01 Texel OviAri_1_chr7 complement(275085-275166)
TRDDTRDD5 TRDD5*01 ORF (3) 7
RTPr
++
CM008478.1 Rambouillet BK064708 [1,2] MAP 2689362-2689439 TRDD3*01 Texel OviAri_1_chr7 complement(266234-266311)
TRDDTRDD6 TRDD6*01 F 7
RTPr
++
CM008478.1 Rambouillet BK064708 [1,2] MAP 2700456-2700535 TRDD4*01 Texel OviAri_1_chr7 complement(255128-255207)
TRDDTRDD7 TRDD7*01 ORF (4) 7
RTPr
++
CM008478.1 Rambouillet BK064708 [1,2] MAP 2725129-2725208 TRDD5*01 Texel OviAri_1_chr7 complement(240881-240960)
TRDDTRDD8 TRDD8*01 F 7
RTPr
++
CM008478.1 Rambouillet BK064708 [1,2] MAP 2731315-2731390 TRDD6*01 Texel OviAri_1_chr7 complement(234692-234767)
TRDDTRDD9 TRDD9*01 F 7
RTPr
++
CM008478.1 Rambouillet BK064708 [1,2] MAP 2745931-2746008 TRDD7*01 Texel OviAri_1_chr7 complement(219955-220032)

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

IMGT notes:
  1. noncanonical 3'D-NONAMER: tcaaaatcc instead of acaaaaact
  2. noncanonical 3'D-NONAMER: ttaaaaatc instead of acaaaaact
  3. noncanonical 3'D-HEPTAMER: cacgaag instead of cacagtg
  4. noncanonical 3'D-HEPTAMER: caccaca instead of cacagtg
  5. Sequence not in locus reference sequence (assembly Oar_rambouillet_v1.0)
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. 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