Here you are: IMGT Web resources > IMGT Repertoire (IG and TR) > 1. Locus and genes
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]
TRAJ2 TRAJ2*01 ORF (2) 14q11.2 83858-84788 (11) X02884 [1] 84269-84334 (11) pseudoJalpha MAP X05003 [2]
J2 MAP M94081 [7]
AE000662 [8]
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]
TRAJ4 TRAJ4*01 F 14q11.2 + [12-16] + [12-16] 80952-82750 J4 MAP M94081 [7] 82396-82458 AE000662 [8]
TRAJ5 TRAJ5*01 F 14q11.2 + [12-16] + [12-16] 79892-80951 J5 MAP M94081 [7] 80444-80503 AE000662 [8]
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]
TRAJ7 TRAJ7*01 F 14q11.2 + [12-16] + [12-16] 77118-78578 J7 MAP M94081 [7] 77821-77879 AE000662 [8]
TRAJ8 TRAJ8*01 F 14q11.2 + [12-16] + [12-16] 76086-77117 J8 MAP M94081 [7] 76346-76405 AE000662 [8]
TRAJ9 TRAJ9*01 F 14q11.2 + [12-16] + [12-16] 74764-76085 J9 MAP M94081 [7] 75756-75816 AE000662 [8]
TRAJ10 TRAJ10*01 F 14q11.2 + [12-16] + [12-16] 73237-74763 J10 MAP M94081 [7] 73699-73762 AE000662 [8]
TRAJ11 TRAJ11*01 F 14q11.2 + [12-16] + [12-16] 72459-73236 J11 MAP M94081 [7] 72706-72765 AE000662 [8]
TRAJ12 TRAJ12*01 F 14q11.2 + [12-16] + [12-16] 71747-72458 (11) X02885 [1] 72143-72202 (11) J12 MAP M94081 [7]
AE000662 [8]
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 + + RP11-576P2 MAP AC023226 [17] 51292-51354 C-2555K7 MAP AL160314 1-62 (12)
JHAP23G X58764 [12] 73..135 c (st)
TRAJ14 TRAJ14*01 F 14q11.2 70218-70935 J14 MAP M94081 [7] 70532-70583 AE000662 [8]
TRAJ15 TRAJ15*01 F 14q11.2 + [12-16] + [12-16] JaS MAP X05775 [5]
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]
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]
TRAJ18 TRAJ18*01 F 14q11.2 + [12-16] + [12-16] 65715-66506 J18 MAP M94081 [7] 65876-65941 AE000662 [8]
TRAJ19 TRAJ19*01 ORF (4) 14q11.2 65051-65714 J19 MAP M94081 [7] 65489-65548 AE000662 [8]
TRAJ20 TRAJ20*01 F 14q11.2 + [12-16] + [12-16] - [12-16] 64222-65050 J20 MAP M94081 [7] 64552-64608 AE000662 [8]
TRAJ21 TRAJ21*01 F 14q11.2 + [12-16] + [12-16] 63083-64221 J21 MAP M94081 [7] 63829-63883 AE000662 [8]
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]
TRAJ23 TRAJ23*01 F 14q11.2 + [12-16] + [12-16] 60460-61494 J23 MAP M94081 [7] 60650-60712 AE000662 [8]
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]
TRAJ25 TRAJ25*01 ORF (5) 14q11.2 58895-59656 (11) X02888 [1] 59046-59105 (11) J25 MAP M94081 [7]
AE000662 [8]
TRAJ26 TRAJ26*01 F 14q11.2 + [12-16] + [12-16] 57625-58894 J26 MAP M94081 [7] 58680-58739 AE000662 [8]
TRAJ27 TRAJ27*01 F 14q11.2 + [12-16] + [12-16] - [12-16] 56217-57624 J27 MAP M94081 [7] 56507-56565 AE000662 [8]
TRAJ28 TRAJ28*01 F 14q11.2 + [12-16] + [12-16] - [12-16] 55049-56216 J28 MAP M94081 [7] 55857-55922 AE000662 [8]
TRAJ29 TRAJ29*01 F 14q11.2 + [12-16] + [12-16] 53664-55048 J29 MAP M94081 [7] 54177-54236 AE000662 [8]
J29 MAP X02889 [1]
TRAJ30 TRAJ30*01 F 14q11.2 + [12-16] + [12-16] 52179-53663 J30 MAP M94081 [7] 53090-53146 AE000662 [8]
TRAJ31 TRAJ31*01 F 14q11.2 + [12-16] + [12-16] 50429-52178 (11) M14905 [3] 53090-53146 (11) J31 MAP M94081 [7]
AE000662 [8]
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] AF532854 [9] #c
TRAJ33 TRAJ33*01 F 14q11.2 + [12-16] + [12-16] 48406-49242 J33 MAP M94081 [7] 48843-48899 AE000662 [8]
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]
TRAJ35 TRAJ35*01 ORF (6) 14q11.2 - [12-16] + [12-16] - [12-16] 46151-47427 J35 MAP M94081 [7] 46885-46943 AE000662 [8]
TRAJ36 TRAJ36*01 F 14q11.2 + [12-16] 44705-46150 J36 MAP M94081 [7] 45353-45411 AE000662 [8]
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] AJ007774 [10] #c
TRAJ38 TRAJ38*01 F 14q11.2 + [12-16] + [12-16] 42130-43203 J38 MAP M94081 [7] 42473-42534 AE000662 [8]
TRAJ39 TRAJ39*01 F 14q11.2 + [12-16] + [12-16] 40917-42129 J39 MAP M94081 [7] 41843-41905 AE000662 [8]
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]
TRAJ41 TRAJ41*01 F 14q11.2 + [12-16] + [12-16] 37548-38945 J41 MAP M94081 [7] 37900-37961 AE000662 [8]
TRAJ42 TRAJ42*01 F 14q11.2 + [12-16] + [12-16] 36669-37547 J42 MAP M94081 [7] 37130-37195 AE000662 [8]
TRAJ43 TRAJ43*01 F 14q11.2 + [12-16] 35641-36668 J43 MAP M94081 [7] 36154-36207 AE000662 [8]
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]
TRAJ45 TRAJ45*01 F 14q11.2 + [12-16] + [12-16] 33940-34649 J45 MAP M94081 [7] 34169-34234 AE000662 [8]
TRAJ46 TRAJ46*01 F 14q11.2 33400-33939 J46 MAP M94081 [7] 33647-33709 AE000661 [8]
TRAJ47 TRAJ47*01 F 14q11.2 + [12-16] + [12-16] 31948-33399 J47 MAP M94081 [7] 33096-33152 AE000661 [8]
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]
TRAJ49 TRAJ49*01 F 14q11.2 + [12-16] + [12-16] 29317-30263 J49 MAP M94081 [7] 29734-29789 AE000661 [8]
TRAJ50 TRAJ50*01 F 14q11.2 + [12-16] 28166-29316 J50 MAP M94081 [7] 28839-28898 AE000661 [8]
TRAJ51 TRAJ51*01 P (7) 14q11.2 - [12-16] - [12-16] 27017-28165 J51 MAP M94081 [7] 27429-27491 AE000661 [8]
TRAJ52 TRAJ52*01 F 14q11.2 + [12-16] + [12-16] 24846-27016 J52 MAP M94081 [7] 26474-26542 AE000661 [8]
TRAJ53 TRAJ53*01 F 14q11.2 + [12-16] + [12-16] 22923-24845 J53 MAP M94081 [7] 23251-23316 AE000661 [8]
TRAJ54 TRAJ54*01 F 14q11.2 + [12-16] + [12-16] - [12-16] 22328-22922 J54 MAP M94081 [7] 22534-22593 AE000661 [8]
TRAJ55 TRAJ55*01 P (7) 14q11.2 19887-22327 J55 MAP M94081 [7] 21944-22000 AE000661 [8]
TRAJ56 TRAJ56*01 F 14q11.2 + [12-16] + [12-16] 19475-19886 J56 MAP M94081 [7] 19768-19829 AE000661 [8]
TRAJ57 TRAJ57*01 F 14q11.2 + [12-16] + [12-16] 18568-19474 J57 MAP M94081 [7] 19119-19181 AE000661 [8]
TRAJ58 TRAJ58*01 ORF (8) 14q11.2 + [12-16] + [12-16] 17405-18467 J58 MAP M94081 [7] 17954-18016 AE000661 [8]
TRAJ59 TRAJ59*01 ORF (9) 14q11.2 + [12-16] - [12-16] - [12-16] 16704-17404 J59 MAP M94081 [7] 16801-16854 AE000661 [8]
TRAJ60 TRAJ60*01 P (7) 14q11.2 + [12-16] 16089-16703 J60 MAP M94081 [7] 16554-16610 AE000661 [8]
TRAJ61 TRAJ61*01 ORF (9) 14q11.2 + [12-16] 12582-16088 J61 MAP M94081 [7] 15564-15623 AE000661 [8]

#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.
  4. (4) 7 nucleotides instead of 12 in J-SPACER.
  5. (5) Non canonical J-HEPTAMER: CACTATG instead of CACTGTG.
  6. (6) Non canonical J-REGION: Cys-Gly-X-Gly instead of Phe-Gly-X-Gly.
  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.
  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.
See also (IMGT Scientific chart):