IMGT Repertoire (IG and TR)


Gene table: human (Homo sapiens) TRAJ

Citing this page: Scaviner, D. and Lefranc, M.-P., Exp. Clin. Immunogenet., 17, 97-106 (2000) PMID: 10810226 pdf

"+" 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 between 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.
Functionality is shown between brackets, [F] and [P], when the accession number refers to genomic DNA, but not known as being germline or rearranged.

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Note that AE000661 encompasses M94081 from TRAJ61 to TRAJ46, and AE000662 encompasses M94081 from TRAJ45 to TRAJ1. Sequencing and/or typing errors initially detected by IMGT in M94081 sequence (TRAJ15, TRAJ36, TRAJ37) have been corrected with the author's authorization (B.K.) in EMBL (11/97). These errors have not yet been corrected in AE000662 sequence.

Invariant TRAV10-TRAJ18 (previously Valpha24-JalphaQ), NK T rearrangements. The "invariant" TR alpha chain of the human CD161+ T cells which recognize CD1d results from the TRAV10-TRAJ18 (previously Valpha24-JalphaQ) rearrangement. CD161 is expressed by ~ 15 % of human T cells but only a very small fraction of these CD161+ T cells are invariant NK T cells (<0,1 % of total T cells and <1 % of CD161+ T cells in most donors) [Exley, M.A. et al., Current Protocols in Immunology, Wiley, J. and Sons, New York, 14, 14.11.1-14.11.13 (2002)].

IMGT gene name IMGT allele name Fct Chromosomal localization R T Pr Positions in the locus IMGT/LIGM-DB reference sequences IMGT/LIGM-DB sequences from the literature
Clone names Accession numbers Positions in the sequence (J-REGION) Secondary accession numbers Clone names Accession numbers Positions in the sequence (J-REGION)
TRAJ1 TRAJ1*01 ORF (1) 14q11.2 - [12-16] - [12-16] 84789-86510 (11) X02884 [1] 85235-85296 (11) J1 MAP M94081 [7]
AE000662 [8]
CM000676.2 IMGT000024 933134-933195
TRAJ2 TRAJ2*01 ORF (2) 14q11.2 83858-84788 (11) X02884 [1] 84269-84334 (11) pseudoJalpha MAP X05003 [2]
J2 MAP M94081 [7]
CM000676.2 IMGT000024 932168-932233
TRAJ3 TRAJ3*01 F 14q11.2 + [12-16] + [12-16] 82751-83857 (11) X02884 [1] 83376-83337 (11) JalphaSP MAP X05003 [2]
J3 MAP M94081 [7]
AE000662 [8]
CM000676.2 IMGT000024 931276-931337
TRAJ4 TRAJ4*01 F 14q11.2 + [12-16] + [12-16] 80952-82750 J4 MAP M94081 [7] 82396-82458 AE000662 [8]
CM000676.2 IMGT000024 930296-930358
TRAJ5 TRAJ5*01 F 14q11.2 + [12-16] + [12-16] 79892-80951 J5 MAP M94081 [7] 80444-80503 AE000662 [8]
CM000676.2 IMGT000024 928344-928403
TRAJ6 TRAJ6*01 F 14q11.2 + [12-16] + [12-16] 78579-79891 (11) JA5 MAP M16747 [4] 79270-79331 (11) J6 MAP M94081 [7]
AE000662 [8]
CM000676.2 IMGT000024 927170-927231
TRAJ7 TRAJ7*01 F 14q11.2 + [12-16] + [12-16] 77118-78578 J7 MAP M94081 [7] 77821-77879 AE000662 [8]
CM000676.2 IMGT000024 925719-925777
TRAJ8 TRAJ8*01 F 14q11.2 + [12-16] + [12-16] 76086-77117 J8 MAP M94081 [7] 76346-76405 AE000662 [8]
TRAJ8*02 P (7) 14q11.2 [12-16] [12-16] 923964-924998 CM000676.2 IMGT000024 924242-924301
TRAJ9 TRAJ9*01 F 14q11.2 + [12-16] + [12-16] 74764-76085 J9 MAP M94081 [7] 75756-75816 AE000662 [8]
CM000676.2 IMGT000024 923651-923711
TRAJ10 TRAJ10*01 F 14q11.2 + [12-16] + [12-16] 73237-74763 J10 MAP M94081 [7] 73699-73762 AE000662 [8]
CM000676.2 IMGT000024 921594-921657
TRAJ11 TRAJ11*01 F 14q11.2 + [12-16] + [12-16] 72459-73236 J11 MAP M94081 [7] 72706-72765 AE000662 [8]
CM000676.2 IMGT000024 920599-920658
TRAJ12 TRAJ12*01 F 14q11.2 + [12-16] + [12-16] 71747-72458 (11) X02885 [1] 72143-72202 (11) J12 MAP M94081 [7]
AE000662 [8]
CM000676.2 IMGT000024 920036-920095
TRAJ13 TRAJ13*01 F 14q11.2 + [12-16] + [12-16] 70936-71746 J13 MAP M94081 [7] 71280-71342 AE000662 [8]
TRAJ13*02 F 14q11.2 + + MLV-TPA-Mat-255 MAP AB258131 [18] complement(101..163) RP11-576P2 MAP AC023226 [17] 51292-51354
C-2555K7 MAP AL160314 1-62 (12)
JHAP23G X58764 [12] 73..135 c (st)
CM000676.2 IMGT000024 919173-919235
TRAJ14 TRAJ14*01 F 14q11.2 70218-70935 J14 MAP M94081 [7] 70532-70583 AE000662 [8]
CM000676.2 IMGT000024 918424-918475
TRAJ15 TRAJ15*01 F 14q11.2 + [12-16] + [12-16] JaS MAP X05775 [5] CM000676.2 IMGT000024 917726..917785
TRAJ15*02 F 14q11.2 + [12-16] + [12-16] 69322-70217 J15 MAP M94081 [7] 69836-69895 AE000662 [8]
TRAJ16 TRAJ16*01 F (3) 14q11.2 + [12-16] + [12-16] 67939-69321 J16 MAP M94081 [7] 68743-68802 AE000662 [8]
TRAJ16*02 F (3) 14q11.2 + [12-16] + [12-16] 915801-917191 CM000676.2 IMGT000024 916624-916683
TRAJ17 TRAJ17*01 F 14q11.2 + [12-16] + [12-16] 66507-67938 (11) JaLv MAP X05773 [5] 67068-67130 (11) J17 MAP M94081 [7]
AE000662 [8]
CM000676.2 IMGT000024 914941-915003
TRAJ18 TRAJ18*01 F 14q11.2 + [12-16] + [12-16] 65715-66506 J18 MAP M94081 [7] 65876-65941 AE000662 [8]
CM000676.2 IMGT000024 913747-913812
TRAJ19 TRAJ19*01 ORF (4) 14q11.2 65051-65714 J19 MAP M94081 [7] 65489-65548 AE000662 [8]
CM000676.2 IMGT000024 913360-913419
TRAJ20 TRAJ20*01 F 14q11.2 + [12-16] + [12-16] - [12-16] 64222-65050 J20 MAP M94081 [7] 64552-64608 AE000662 [8]
CM000676.2 IMGT000024 912422-912478
TRAJ21 TRAJ21*01 F 14q11.2 + [12-16] + [12-16] 63083-64221 J21 MAP M94081 [7] 63829-63883 AE000662 [8]
CM000676.2 IMGT000024 911697-911751
TRAJ22 TRAJ22*01 F 14q11.2 + [12-16] + [12-16] 61495-63082 (11) J22 MAP X02886 [1] 62272-62334 (11) J22 MAP M94081 [7]
AE000662 [8]
CM000676.2 IMGT000024 910137-910199
TRAJ23 TRAJ23*01 F 14q11.2 + [12-16] + [12-16] 60460-61494 J23 MAP M94081 [7] 60650-60712 CM000676.2 IMGT000024 908513-908575
TRAJ23*02 F 14q11.2 JHAP36G X58763 [12] 61-123 c (st)
TRAJ24 TRAJ24*01 F 14q11.2 X02887 [1]
TRAJ24*02 F 14q11.2 59657-60459 M94081 [7] 60203-60265 AE000662 [8]
TRAJ24*03 F 14q11.2 907505-908307 CM000676.2 IMGT000024 908066-908128
TRAJ25 TRAJ25*01 ORF (5) 14q11.2 58895-59656 (11) X02888 [1] 59046-59105 (11) J25 MAP M94081 [7]
AE000662 [8]
CM000676.2 IMGT000024 906909-906968
TRAJ26 TRAJ26*01 F 14q11.2 + [12-16] + [12-16] 57625-58894 J26 MAP M94081 [7] 58680-58739 AE000662 [8]
CM000676.2 IMGT000024 906543-906602
TRAJ27 TRAJ27*01 F 14q11.2 + [12-16] + [12-16] - [12-16] 56217-57624 J27 MAP M94081 [7] 56507-56565 AE000662 [8]
CM000676.2 IMGT000024 904370-904428
TRAJ28 TRAJ28*01 F 14q11.2 + [12-16] + [12-16] - [12-16] 55049-56216 J28 MAP M94081 [7] 55857-55922 AE000662 [8]
IMGT00024 903720-903785
TRAJ29 TRAJ29*01 F 14q11.2 + [12-16] + [12-16] 53664-55048 J29 MAP M94081 [7] 54177-54236 AE000662 [8]
J29 MAP X02889 [1]
CM000676.2 IMGT000024 902036-902095
TRAJ30 TRAJ30*01 F 14q11.2 + [12-16] + [12-16] 52179-53663 J30 MAP M94081 [7] 53090-53146 AE000662 [8]
CM000676.2 IMGT000024 900949-901005
TRAJ31 TRAJ31*01 F 14q11.2 + [12-16] + [12-16] 50428-52178 (11) J31 MAP M94081 [7] 51207-51263 (11) M14095 [3] 17-132
AE000662 [8] 17098-17154
CM000676.2 IMGT000024 899065-899121
TRAJ32 TRAJ32*01 F 14q11.2 + [12-16] + [12-16] 49243-50248 J32 MAP M94081 [7] 49581-49646 AE000662 [8]
TRAJ32*02 F 14q11.2 + [12-16] + [12-16] 897084-898271 CM000676.2 IMGT000024 897438-897503 AF532854 [9] #c
TRAJ33 TRAJ33*01 F 14q11.2 + [12-16] + [12-16] 48406-49242 J33 MAP M94081 [7] 48843-48899 AE000662 [8]
CM000676.2 IMGT000024 896699-896755
TRAJ34 TRAJ34*01 F 14q11.2 + [12-16] + [12-16] 47428-48405 (11) JaAB MAP M35622 [6] 47907-47964 (11) J34 MAP M94081 [7]
AE000662 [8]
CM000676.2 IMGT000024 895763-895820
TRAJ35 TRAJ35*01 F (6) 14q11.2 - [12-16] + [12-16] - [12-16] 46151-47427 J35 MAP M94081 [7] 46885-46943 AE000662 [8]
CM000676.2 IMGT000024 894741-894799
TRAJ36 TRAJ36*01 F 14q11.2 + [12-16] 44705-46150 J36 MAP M94081 [7] 45353-45411 AE000662 [8]
CM000676.2 IMGT000024 893207-893265
TRAJ37 TRAJ37*01 F 14q11.2 + [12-16] + [12-16] 43204-44704 J37 MAP M94081 [7] 43993-44054 AE000662 [8]
TRAJ37*02 F 14q11.2 + [12-16] + [12-16] 891106-892544 CM000676.2 IMGT000024 891847-891908 AJ007774 [10] #c
TRAJ38 TRAJ38*01 F 14q11.2 + [12-16] + [12-16] 42130-43203 J38 MAP M94081 [7] 42473-42534 AE000662 [8]
CM000676.2 IMGT000024 890328-890389
TRAJ39 TRAJ39*01 F 14q11.2 + [12-16] + [12-16] 40917-42129 J39 MAP M94081 [7] 41843-41905 AE000662 [8]
CM000676.2 IMGT000024 889698-889760
TRAJ40 TRAJ40*01 F 14q11.2 + [12-16] + [12-16] 38946-40916 (11) JaAA MAP M35620 [6] 39930-39990 (11) J40 MAP M94081 [7]
AE000662 [8]
CM000676.2 IMGT000024 887786-887846
TRAJ41 TRAJ41*01 F 14q11.2 + [12-16] + [12-16] 37548-38945 J41 MAP M94081 [7] 37900-37961 AE000662 [8]
CM000676.2 IMGT000024 885754-885815
TRAJ42 TRAJ42*01 F 14q11.2 + [12-16] + [12-16] 36669-37547 J42 MAP M94081 [7] 37130-37195 AE000662 [8]
CM000676.2 IMGT000024 884984-885049
TRAJ43 TRAJ43*01 F 14q11.2 + [12-16] 35641-36668 J43 MAP M94081 [7] 36154-36207 AE000662 [8]
CM000676.2 IMGT000024 884010-884063
TRAJ44 TRAJ44*01 F 14q11.2 + [12-16] + [12-16] 34650-35640 (11) JaRP MAP M35619 [6] 35064-35126 (11) J44 MAP M94081 [7]
AE000662 [8]
CM000676.2 IMGT000024 882918-882980
TRAJ45 TRAJ45*01 F 14q11.2 + [12-16] + [12-16] 33940-34649 J45 MAP M94081 [7] 34169-34234 AE000662 [8]
CM000676.2 IMGT000024 882022-882087
TRAJ46 TRAJ46*01 F 14q11.2 33400-33939 J46 MAP M94081 [7] 33647-33709 AE000661 [8]
CM000676.2 IMGT000024 881500-881562
TRAJ47 TRAJ47*01 F 14q11.2 + [12-16] + [12-16] 31948-33399 J47 MAP M94081 [7] 33096-33152 AE000661 [8]
CM000676.2 IMGT000024 880948-881004
TRAJ47*02 (F) 14q11.2 + [12-16] + [12-16] AF033825 [11] #c
TRAJ48 TRAJ48*01 F 14q11.2 + [12-16] + [12-16] 30264-31947 J48 MAP M94081 [7] 30737-30799 AE000661 [8]
CM000676.2 IMGT000024 878588-878650
TRAJ49 TRAJ49*01 F 14q11.2 + [12-16] + [12-16] 29317-30263 J49 MAP M94081 [7] 29734-29789 AE000661 [8]
CM000676.2 IMGT000024 877585-877640
TRAJ50 TRAJ50*01 F 14q11.2 + [12-16] 28166-29316 J50 MAP M94081 [7] 28839-28898 AE000661 [8]
CM000676.2 IMGT000024 876690-876749
TRAJ51 TRAJ51*01 P (7) 14q11.2 - [12-16] - [12-16] 27017-28165 J51 MAP M94081 [7] 27429-27491 AE000661 [8]
CM000676.2 IMGT000024 875280-875342
TRAJ52 TRAJ52*01 F 14q11.2 + [12-16] + [12-16] 24846-27016 J52 MAP M94081 [7] 26474-26542 AE000661 [8]
CM000676.2 IMGT000024 874325-874393
TRAJ53 TRAJ53*01 F 14q11.2 + [12-16] + [12-16] 22923-24845 J53 MAP M94081 [7] 23251-23316 AE000661 [8]
CM000676.2 IMGT000024 871101-871166
TRAJ54 TRAJ54*01 F 14q11.2 + [12-16] + [12-16] - [12-16] 22328-22922 J54 MAP M94081 [7] 22534-22593 AE000661 [8]
CM000676.2 IMGT000024 870384-870443
TRAJ55 TRAJ55*01 P (7) 14q11.2 19887-22327 J55 MAP M94081 [7] 21944-22000 AE000661 [8]
CM000676.2 IMGT000024 869794-869850
TRAJ56 TRAJ56*01 F 14q11.2 + [12-16] + [12-16] 19475-19886 J56 MAP M94081 [7] 19768-19829 AE000661 [8]
CM000676.2 IMGT000024 867618-867679
TRAJ57 TRAJ57*01 F 14q11.2 + [12-16] + [12-16] 18568-19474 J57 MAP M94081 [7] 19119-19181 AE000661 [8]
CM000676.2 IMGT000024 866969-867031
TRAJ58 TRAJ58*01 ORF (8) 14q11.2 + [12-16] + [12-16] 17405-18467 J58 MAP M94081 [7] 17954-18016 AE000661 [8]
CM000676.2 IMGT000024 865804-865866
TRAJ59 TRAJ59*01 ORF (9) 14q11.2 + [12-16] - [12-16] - [12-16] 16704-17404 J59 MAP M94081 [7] 16801-16854 AE000661 [8]
CM000676.2 IMGT000024 864650-864709
TRAJ60 TRAJ60*01 P (7) 14q11.2 + [12-16] 16089-16703 J60 MAP M94081 [7] 16554-16610 AE000661 [8]
CM000676.2 IMGT000024 864403-864459
TRAJ61 TRAJ61*01 ORF (9) 14q11.2 + [12-16] 12582-16088 J61 MAP M94081 [7] 15564-15623 AE000661 [8]
CM000676.2 IMGT000024 863413-863472

#c: rearranged cDNA
MAP: Mapped sequences.
#g: rearranged genomic DNA.
c: cDNA sequence.
(st): steril transcript.

IMGT notes:
  1. (1) Non canonical J-HEPTAMER: GGGCATG instead of CACTGTG, and non canonical J-NONAMER: ATTCTGT instead of GGTTTTTGT.
  2. (2) Non canonical J-HEPTAMER: TACGGTA instead of CACTGTG.
  3. (3) Note in the J-REGION: Phe-Ala-X-Gly instead of Phe-Gly-X-Gly, however Ala and Gly are both very small amino acids, this change does not pose a structural problem
  4. (4) unexpected J-SPACER length (7 nt instead of 12 nt), noncanonical J-NONAMER: tgattttgc instead of ggtttttgt and noncanonical J-HEPTAMER: agatgtg instead of cactgtg.
  5. (5) Non canonical J-HEPTAMER: CACTATG instead of CACTGTG.
  6. (6) noncanonical J-MOTIF: Cys-Gly-X-Gly instead of Phe-Gly-X-Gly. The functionality of TRAJ35*01, initially considered as ORF owing to the presence of Cys (C118) instead of Phe (F118) in the J-MOTIF, has been changed to F (functional) as TRAJ35*01 has been found rearranged and expressed in several specific cDNA clones (comments added by G. Folch and M.-P. Lefranc on the 23/01/2019, following the identification of an additional clone and a question by C. Joos (Germany)).
  7. (7) STOP-CODON in J-REGION.
  8. (8) Note that the first codon of the germline J-REGION is a STOP-CODON which may disappear during rearrangements.
  9. (9) Defective DONOR-SPLICE t/ct instead of n/gt.
  10. (10) 5'UTR of TRAJ29 gene.
  11. (11) Positions in the locus (J-GENE) and positions in the sequence (J-REGION) are those in the Accession number M94081.
  12. (12) Partial J-REGION in 5' side.
IMGT references:
  1. [1] Yoshikai Y. et al., Nature, 316, 837-840 (1985). PMID:2993909
  2. [2] Baer R. et al., Mol. Biol. Med., 3, 265-277 (1986). PMID:3016457
  3. [3] Finger L.R. et al., Science, 234, 982-985 (1986). PMID:3490692
  4. [4] Baer R. et al., Cell, 50, 97-105 (1987). PMID:3036367
  5. [5] Mengle-Gaw L. et al., EMBO J., 6, 2273-2280 (1987). PMID:3117531
  6. [6] Baer R. et al., EMBO J., 7, 1661-1668 (1988). PMID:2971534
  7. [7] Koop B.F. et al., Genomics, 19, 478-493 (1994). PMID:8188290
  8. [8] Boysen C. et al., Unpublished.
  9. [9] Mantovani S., Unpublished.
  10. [10] Wienhold W. et al., Unpublished.
  11. [11] Brander C. et al., Unpublished.
  12. [12] Roman-Roman S. et al., Eur. J. Immunol., 21, 927-933 (1991). PMID:1826888
  13. [13] Giachino C. et al., J. Immunol. Res., 4, 99-105 (1992).
  14. [14] Moss P.A. et al., Eur. J. Immunol., 23, 1153-1159 (1993). PMID:8477809
  15. [15] Roman-Roman S. et al., Mol. Immun., 30, 423-431 (1993). PMID:8385265
  16. [16] Koop B.F.et al., Genomics, 19, 478-493 (1994). PMID:8188290
  17. [17] Birren, B. et al., Unpublished.
  18. [18] Tsukahara T. et al., Biochem. Biophys. Res. Commun., 345(3), 1099-1107 (2006). PMID:16713998
Created:
27/10/1997
Last updated:
22/09/2023
Authors:
Dominique Scaviner, Joumana Jabado-Michaloud, Géraldine Folch, Viviane Nguefack Ngoune