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.

TRAJ44D in OviAri_1_chr7 is not present in IMGT000048 and may result from an assembly error. TRAJ29D, TRAJ29N, TRAJ30D, TRAJ31D, TRAJ31N, TRAJ32D, TRAJ32N, TRAJ33D, TRAJ33N, TRAJ34D, TRAJ34N, TRAJ35D, TRAJ35N, TRAJ36D, TRAJ36N, TRAJ37D, TRAJ37N, TRAJ38D and TRAJ39D in IMGT000048 are not present in OviAri_1_chr7 and may result from an assembly error.

Gene table of sheep (Ovis aries) TRAJ 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 (*)
TRAJ1 TRAJ1*01 F 7 CM008478.1 Rambouillet BK064708✤ [1,2] MAP 2863135-2863224 Texel OviAri_1_chr7 [3] complement(123742-123831)
TRAJ2 TRAJ2*01 F 7
R αT αPr αR δT δPr δ
++
 CM008478.1 Rambouillet BK064708✤ [1,2] MAP 2862163-2862256 Texel OviAri_1_chr7 [3] complement(124710-124803)
TRAJ3 TRAJ3*01 ORF (1) 7 CM008478.1 Rambouillet BK064708✤ [1,2] MAP 2861622-2861708
TRAJ3 TRAJ3*02 ORF (1) 7 TRAJ3*01 Texel OviAri_1_chr7 (12) [3] complement(125258-125344)
TRAJ4 TRAJ4*01 ORF (2) 7 CM008478.1 Rambouillet BK064708✤ [1,2] MAP 2860652-2860742 Texel OviAri_1_chr7 [3] complement(126224-126314)
TRAJ5 TRAJ5*01 F 7 CM008478.1 Rambouillet BK064708✤ [1,2] MAP 2857634-2857720
TRAJ5 TRAJ5*02 F 7 TRAJ5*01 Texel OviAri_1_chr7 (12) [3] complement(129246-129332)
TRAJ6 TRAJ6*01 ORF (3) 7 CM008478.1 Rambouillet BK064708✤ [1,2] MAP 2856439-2856528 Texel OviAri_1_chr7 [3] complement(130420-130509)
TRAJ7 TRAJ7*01 F 7 CM008478.1 Rambouillet BK064708✤ [1,2] MAP 2855802-2855885 Texel OviAri_1_chr7 [3] complement(131063-131146)
TRAJ8-1 TRAJ8-1*01 F 7 CM008478.1 Rambouillet BK064708✤ [1,2] MAP 2854246-2854333 TRAJ8*01 Texel OviAri_1_chr7 [3] complement(132609-132696)
TRAJ8-2 TRAJ8-2*01 F 7 CM008478.1 Rambouillet BK064708✤ [1,2] MAP 2851402-2851489 TRAJ10*01 Texel OviAri_1_chr7 [3] complement(135451-135538)
TRAJ9 TRAJ9*01 F 7 CM008478.1 Rambouillet BK064708✤ [1,2] MAP 2853660-2853748
TRAJ9 TRAJ9*02 F 7
R αT αPr αR δT δPr δ
++
 TRAJ9*01 Texel OviAri_1_chr7 (12) [3] complement(133194-133282)
TRAJ10 TRAJ10*01 F 7 CM008478.1 Rambouillet BK064708✤ [1,2] MAP 2850931-2851021
TRAJ10 TRAJ10*02 F 7 TRAJ11*01 Texel OviAri_1_chr7 (12) [3] complement(135919-136009)
TRAJ11 TRAJ11*01 F 7
R αT αPr αR δT δPr δ
++
 CM008478.1 Rambouillet BK064708✤ [1,2] MAP 2849929-2850016 TRAJ12*01 Texel OviAri_1_chr7 [3] complement(136923-137011)
TRAJ12 TRAJ12*01 F 7
R αT αPr αR δT δPr δ
++
 CM008478.1 Rambouillet BK064708✤ [1,2] MAP 2849367-2849454 TRAJ13*01 Texel OviAri_1_chr7 ORF (14) (13) [3] complement(137486-137573)
TRAJ13 TRAJ13*01 ORF (4) 7 CM008478.1 Rambouillet BK064708✤ [1,2] MAP 2848520-2848597 TRAJ14*01 Texel OviAri_1_chr7 [3] complement(138336-138413)
TRAJ14 TRAJ14*01 ORF (5) 7 CM008478.1 Rambouillet BK064708✤ [1,2] MAP 2847818-2847897 TRAJ15*01 Texel OviAri_1_chr7 [3] complement(139036-139115)
TRAJ15 TRAJ15*01 F 7
R αT αPr αR δT δPr δ
++
 CM008478.1 Rambouillet BK064708✤ [1,2] MAP 2846927-2847014 TRAJ16*01 Texel OviAri_1_chr7 [3] complement(139919-140006)
TRAJ16 TRAJ16*01 F 7
R αT αPr αR δT δPr δ
++
 CM008478.1 Rambouillet BK064708✤ [1,2] MAP 2845839-2845927 TRAJ17*01 Texel OviAri_1_chr7 [3] complement(141006-141094)
TRAJ17 TRAJ17*01 F 7 CM008478.1 Rambouillet BK064708✤ [1,2] MAP 2844430-2844520 TRAJ18*01 Texel OviAri_1_chr7 [3] complement(142413-142503)
TRAJ18 TRAJ18*01 F 7 CM008478.1 Rambouillet BK064708✤ [1,2] MAP 2843316-2843409 TRAJ19*01 Texel OviAri_1_chr7 [3] complement(143524-143617)
TRAJ19 TRAJ19*01 P (6) 7 CM008478.1 Rambouillet BK064708✤ [1,2] MAP 2842960-2843017 * TRAJ20*01 Texel OviAri_1_chr7 [3] complement(143916-143973) *
TRAJ20 TRAJ20*01 F 7
R αT αPr αR δT δPr δ
++
 CM008478.1 Rambouillet BK064708✤ [1,2] MAP 2841974-2842059 Texel OviAri_1_chr7 [3] complement(144873-144958)
TRAJ21 TRAJ21*01 F 7
R αT αPr αR δT δPr δ
++
 CM008478.1 Rambouillet BK064708✤ [1,2] MAP 2841279-2841361 Texel OviAri_1_chr7 [3] complement(145569-145651)
TRAJ22 TRAJ22*01 F 7 CM008478.1 Rambouillet BK064708✤ [1,2] MAP 2839744-2839834 Texel OviAri_1_chr7 [3] complement(147096-147186)
TRAJ23 TRAJ23*01 F 7 CM008478.1 Rambouillet BK064708✤ [1,2] MAP 2838628-2838718 Texel OviAri_1_chr7 [3] complement(148212-148302)
TRAJ24 TRAJ24*01 F 7 CM008478.1 Rambouillet BK064708✤ [1,2] MAP 2838184-2838274 Texel OviAri_1_chr7 [3] complement(148656-148746)
TRAJ25 TRAJ25*01 F 7 CM008478.1 Rambouillet BK064708✤ [1,2] MAP 2837336-2837423 Texel OviAri_1_chr7 [3] complement(149507-149594)
TRAJ26 TRAJ26*01 F 7 CM008478.1 Rambouillet BK064708✤ [1,2] MAP 2837039-2837126 Texel OviAri_1_chr7 [3] complement(149804-149891)
TRAJ27 TRAJ27*01 F 7
R αT αPr αR δT δPr δ
++
 CM008478.1 Rambouillet BK064708✤ [1,2] MAP 2834849-2834935 Texel OviAri_1_chr7 [3] complement(152009-152095)
TRAJ28 TRAJ28*01 F 7 CM008478.1 Rambouillet BK064708✤ [1,2] MAP 2834192-2834285 Texel OviAri_1_chr7 [3] complement(152659-152752)
TRAJ29 TRAJ29*01 F 7 CM008478.1 Rambouillet BK064708✤ [1,2] MAP 2833171-2833258 Texel OviAri_1_chr7 [3] complement(153686-153773)
TRAJ29D TRAJ29D*01 ORF (7) 7 CM008478.1 Rambouillet BK064708✤ [1,2] MAP 2812027-2812113
TRAJ29N TRAJ29N*01 F 7 CM008478.1 Rambouillet BK064708✤ [1,2] MAP 2811825-2811912
TRAJ30 TRAJ30*01 F 7
R αT αPr αR δT δPr δ
++
 CM008478.1 Rambouillet BK064708✤ [1,2] MAP 2832160-2832246 Texel OviAri_1_chr7 [3] complement(154698-154784)
TRAJ30D TRAJ30D*01 P (8) 7 CM008478.1 Rambouillet BK064708✤ [1,2] MAP 2810834-2810910
TRAJ31 TRAJ31*01 F 7 CM008478.1 Rambouillet BK064708✤ [1,2] MAP 2830065-2830150 Texel OviAri_1_chr7 [3] complement(156794-156879)
TRAJ31D TRAJ31D*01 P (8) 7 CM008478.1 Rambouillet BK064708✤ [1,2] MAP 2819370-2819456
TRAJ31N TRAJ31N*01 P (9) 7 CM008478.1 Rambouillet BK064708✤ [1,2] MAP 2808773-2808857
TRAJ32 TRAJ32*01 F 7 CM008478.1 Rambouillet BK064708✤ [1,2] MAP 2806955-2807048
TRAJ32 TRAJ32*02 F 7 TRAJ32*01 Texel OviAri_1_chr7 (12) [3] complement(158599-158692)
TRAJ32D TRAJ32D*01 F 7 CM008478.1 Rambouillet BK064708✤ [1,2] MAP 2828239-2828332
TRAJ32N TRAJ32N*01 P (8) 7 CM008478.1 Rambouillet BK064708✤ [1,2] MAP 2817576-2817667
TRAJ33 TRAJ33*01 F 7 CM008478.1 Rambouillet BK064708✤ [1,2] MAP 2806218-2806303 Texel OviAri_1_chr7 [3] complement(159345-159429)
TRAJ33D TRAJ33D*01 F 7 CM008478.1 Rambouillet BK064708✤ [1,2] MAP 2827502-2827586
TRAJ33N TRAJ33N*01 P (8) 7 CM008478.1 Rambouillet BK064708✤ [1,2] MAP 2816850-2816932
TRAJ34 TRAJ34*01 F 7 CM008478.1 Rambouillet BK064708✤ [1,2] MAP 2805528-2805612 Texel OviAri_1_chr7 [3] complement(160035-160119)
TRAJ34D TRAJ34D*01 F 7 CM008478.1 Rambouillet BK064708✤ [1,2] MAP 2826812-2826896
TRAJ34N TRAJ34N*01 P (8) 7 CM008478.1 Rambouillet BK064708✤ [1,2] MAP 2816160-2816242
TRAJ35 TRAJ35*01 F 7 CM008478.1 Rambouillet BK064708✤ [1,2] MAP 2804490-2804573
TRAJ35 TRAJ35*02 F 7 TRAJ35*01 Texel OviAri_1_chr7 (12) [3] complement(161074-161157)
TRAJ35D TRAJ35D*01 F 7 CM008478.1 Rambouillet BK064708✤ [1,2] MAP 2825775-2825858
TRAJ35N TRAJ35N*01 P (8) 7 CM008478.1 Rambouillet BK064708✤ [1,2] MAP 2815121-2815204
TRAJ36 TRAJ36*01 F 7 CM008478.1 Rambouillet BK064708✤ [1,2] MAP 2803000-2803088 Texel OviAri_1_chr7 [3] complement(162561-162649)
TRAJ36D TRAJ36D*01 F 7 CM008478.1 Rambouillet BK064708✤ [1,2] MAP 2824284-2824372
TRAJ36N TRAJ36N*01 P (8) 7 CM008478.1 Rambouillet BK064708✤ [1,2] MAP 2813643-2813730
TRAJ37 TRAJ37*01 F 7 CM008478.1 Rambouillet BK064708✤ [1,2] MAP 2802303-2802392
TRAJ37 TRAJ37*02 F 7
R αT αPr αR δT δPr δ
++
 TRAJ37*01 Texel OviAri_1_chr7 (12) [3] complement(163258-163347)
TRAJ37D TRAJ37D*01 F 7 CM008478.1 Rambouillet BK064708✤ [1,2] MAP 2823586-2823675
TRAJ37N TRAJ37N*01 P (8) 7 CM008478.1 Rambouillet BK064708✤ [1,2] MAP 2812950-2813038
TRAJ38 TRAJ38*01 F 7 CM008478.1 Rambouillet BK064708✤ [1,2] MAP 2800817-2800906 Texel OviAri_1_chr7 [3] complement(164744-164833)
TRAJ38D TRAJ38D*01 P (9) 7 CM008478.1 Rambouillet BK064708✤ [1,2] MAP 2822099-2822187
TRAJ39 TRAJ39*01 F 7
R αT αPr αR δT δPr δ
++
 CM008478.1 Rambouillet BK064708✤ [1,2] MAP 2800178-2800268 Texel OviAri_1_chr7 [3] complement(165382-165472)
TRAJ39D TRAJ39D*01 P (9) 7 CM008478.1 Rambouillet BK064708✤ [1,2] MAP 2821462-2821551
TRAJ40 TRAJ40*01 F 7
R αT αPr αR δT δPr δ
++
 CM008478.1 Rambouillet BK064708✤ [1,2] MAP 2798224-2798308 Texel OviAri_1_chr7 [3] complement(167339-167423)
TRAJ41 TRAJ41*01 F 7 CM008478.1 Rambouillet BK064708✤ [1,2] MAP 2796508-2796596 Texel OviAri_1_chr7 [3] complement(169051-169139)
TRAJ42 TRAJ42*01 F 7
R αT αPr αR δT δPr δ
++
 CM008478.1 Rambouillet BK064708✤ [1,2] MAP 2796038-2796131 Texel OviAri_1_chr7 [3] complement(169516-169609)
TRAJ43 TRAJ43*01 F 7
R αT αPr αR δT δPr δ
++
 CM008478.1 Rambouillet BK064708✤ [1,2] MAP 2795260-2795344 Texel OviAri_1_chr7 [3] complement(170304-170388)
TRAJ44 TRAJ44*01 F 7 CM008478.1 Rambouillet BK064708✤ [1,2] MAP 2793957-2794046 Texel OviAri_1_chr7 [3] complement(171602-171691)
TRAJ44D TRAJ44D*01 F (10) 7 TRAJ45*01 Texel OviAri_1_chr7 (12) [3] complement(171887-171976)
TRAJ45 TRAJ45*01 F 7 CM008478.1 Rambouillet BK064708✤ [1,2] MAP 2793110-2793200 TRAJ46*01 Texel OviAri_1_chr7 [3] complement(172733-172823)
TRAJ46 TRAJ46*01 F 7
R αT αPr αR δT δPr δ
++
 CM008478.1 Rambouillet BK064708✤ [1,2] MAP 2792596-2792686 TRAJ47*01 Texel OviAri_1_chr7 [3] complement(173247-173337)
TRAJ47 TRAJ47*01 F 7
R αT αPr αR δT δPr δ
++
 CM008478.1 Rambouillet BK064708✤ [1,2] MAP 2791857-2791941 TRAJ48*01 Texel OviAri_1_chr7 [3] complement(173991-174075)
TRAJ48 TRAJ48*01 F 7
R αT αPr αR δT δPr δ
++
 CM008478.1 Rambouillet BK064708✤ [1,2] MAP 2789823-2789913 TRAJ49*01 Texel OviAri_1_chr7 [3] complement(176020-176110)
TRAJ49 TRAJ49*01 F 7
R αT αPr αR δT δPr δ
++
 CM008478.1 Rambouillet BK064708✤ [1,2] MAP 2788941-2789024 TRAJ50*01 Texel OviAri_1_chr7 [3] complement(176908-176991)
TRAJ50 TRAJ50*01 F 7
R αT αPr αR δT δPr δ
++
 CM008478.1 Rambouillet BK064708✤ [1,2] MAP 2788070-2788153 TRAJ51*01 Texel OviAri_1_chr7 [3] complement(177779-177862)
TRAJ52 TRAJ52*01 F 7
R αT αPr αR δT δPr δ
++
 CM008478.1 Rambouillet BK064708✤ [1,2] MAP 2785697-2785790 TRAJ53*01 Texel OviAri_1_chr7 [3] complement(180143-180236)
TRAJ53 TRAJ53*01 F 7
R αT αPr αR δT δPr δ
++
 CM008478.1 Rambouillet BK064708✤ [1,2] MAP 2782491-2782584 TRAJ54*01 Texel OviAri_1_chr7 [3] complement(183350-183443)
TRAJ54 TRAJ54*01 F 7 CM008478.1 Rambouillet BK064708✤ [1,2] MAP 2781827-2781916 TRAJ55*01 Texel OviAri_1_chr7 [3] complement(184019-184108)
TRAJ56 TRAJ56*01 F 7
R αT αPr αR δT δPr δ
++
 CM008478.1 Rambouillet BK064708✤ [1,2] MAP 2779078-2779167 Texel OviAri_1_chr7 [3] complement(186768-186857)
TRAJ57 TRAJ57*01 F 7
R αT αPr αR δT δPr δ
++
 CM008478.1 Rambouillet BK064708✤ [1,2] MAP 2778436-2778526 Texel OviAri_1_chr7 [3] complement(187409-187499)
TRAJ58 TRAJ58*01 F 7
R αT αPr αR δT δPr δ
++
 CM008478.1 Rambouillet BK064708✤ [1,2] MAP 2777213-2777303 Texel OviAri_1_chr7 [3] complement(188633-188723)
TRAJ59 TRAJ59*01 F 7 CM008478.1 Rambouillet BK064708✤ [1,2] MAP 2776072-2776152 Texel OviAri_1_chr7 [3] complement(189783-189863)
TRAJ60 TRAJ60*01 F 7
R αT αPr αR δT δPr δ
++
 CM008478.1 Rambouillet BK064708✤ [1,2] MAP 2775823-2775907 Texel OviAri_1_chr7 [3] complement(190028-190112)
TRAJ61 TRAJ61*01 P (11) 7 CM008478.1 Rambouillet BK064708✤ [1,2] MAP 2774853-2774940 Texel OviAri_1_chr7 [3] complement(190995-191083)

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

IMGT notes: ↑
  1. noncanonical J-HEPTAMER: ctcggtg instead of cactgtg
  2. noncanonical J-HEPTAMER: gtgggtg instead of cactgtg
  3. noncanonical J-MOTIF: LGXG instead of FGXG
  4. noncanonical J-NONAMER: attctgtat instead of ggtttttgt, noncanonical J-HEPTAMER: cagcgtg instead of cactgtg
  5. noncanonical J-NONAMER: aattattgt instead of ggtttttgt, noncanonical J-MOTIF: FAXG instead of FGXG
  6. no J-NONAMER
  7. noncanonical J-NONAMER: agttagtat instead of ggtttttgt, noncanonical J-HEPTAMER: aacaggt instead of cactgtg
  8. frameshifts in J-REGION
  9. frameshift in J-REGION
  10. this gene is not present in IMGT000048 and may result from an assembly error
  11. STOP-CODON in J-REGION
  12. Sequence not in locus reference sequence (assembly Oar_rambouillet_v1.0)
  13. functionality different from the reference sequence: ORF because noncanonical J-NONAMER
  14. noncanonical J-NONAMER: tatttttga instead of ggtttttgt
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
  3. Piccinni, Barbara et al. “Sheep (Ovis aries) T cell receptor alpha (TRA) and delta (TRD) genes and genomic organization of the TRA/TRD locus.” BMC genomics vol. 16 709. 18 Sep. 2015, DOI: 10.1186/s12864-015-1790-z