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 bovine (Bos taurus) 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) 10
RTPr
++
 CM008177.2 Hereford BK064707✤ [2,3] MAP 3123803-3123878 Hereford Btau3.1_ChrUn.158 [1] (4) complement(4564-4639)
TRDDTRDD2 TRDD2*01 F 10
RTPr
++
 CM008177.2 Hereford BK064707✤ [2,3] MAP 3135857-3135936 TRDD1*01 Hereford Btau3.1_Chr10.30 [1] (4) complement(504561-504640)
TRDDTRDD3 TRDD3*01 ORF (2) 10
RTPr
++
 CM008177.2 Hereford BK064707✤ [2,3] MAP 3141967-3142040 Hereford Btau3.1_Chr10.30 [1] (4) complement(498457-498530)
TRDDTRDD4 TRDD4*01 F 10
RTPr
++
 CM008177.2 Hereford BK064707✤ [2,3] MAP 3151710-3151791 TRDD2*01 Hereford Btau3.1_Chr10.30 [1] (4) complement(488704-488785)
TRDDTRDD5 TRDD5*01 ORF (3) 10
RTPr
++
 CM008177.2 Hereford BK064707✤ [2,3] MAP 3159434-3159509 Hereford Btau3.1_Chr10.30 [1] (4) complement(480987-481062)
TRDDTRDD6 TRDD6*01 F 10
RTPr
++
 CM008177.2 Hereford BK064707✤ [2,3] MAP 3171198-3171279 Hereford Btau3.1_Chr10.30 [1] (4) complement(469221-469302)
TRDDTRDD7 TRDD7*01 F 10
RTPr
++
 CM008177.2 Hereford BK064707✤ [2,3] MAP 3190795-3190874 TRDD3*01 Hereford Btau3.1_Chr10.30 [1] (4) complement(449621-449700)
TRDDTRDD8 TRDD8*01 F 10
RTPr
++
 CM008177.2 Hereford BK064707✤ [2,3] MAP 3199249-3199324 TRDD4*01 Hereford Btau3.1_Chr10.30 [1] (4) complement(441202-441277)
TRDDTRDD9 TRDD9*01 F 10
RTPr
++
 CM008177.2 Hereford BK064707✤ [2,3] MAP 3216354-3216431 TRDD5*01 Hereford Btau3.1_Chr10.30 [1] (4) complement(417711-417788)

✤ : 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-HEPTAMER: cagaggt instead of cacagtg, noncanonical 3'D-NONAMER: ttaaaaatc instead of acaaaaact
  3. noncanonical 3'D-NONAMER: catcaggag instead of acaaaaact
  4. The localization of the sequences in the Btau3.1 project is indicated in the accession number after the underscore
IMGT references: ↑
  1. Herzig C.T. et al., Annotation and classification of the bovine T cell receptor delta genes, BMC Genomics, vol. 11, 2010, pp. 100-100. DOI: 10.1186/1471-2164-11-100
  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. 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