IMGT Repertoire (IG and TR)


Gene table: house mouse (Mus musculus) TRAJ

"+" 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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TRAJ segments are designated by a number according to their localisation from 3' to 5'. Ortholog SEGMENTs in human and mouse have the same numbers.
Invariant TRAV11-TRAJ18 (previously Valpha14-Jalpha281), NK T rearrangements (see Gene table: House mouse (Mus musculus) TRAV).

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
Strain Clone names Accession numbers Positions in the sequence (J-REGION) Secondary accession numbers Strain Clone names Accession numbers Positions in the sequence (J-REGION)
TRAJ1 TRAJ1*01 P (1) 14 (19.7 cM) - - - 83901-85000 (23) B10.D2-H2dm1 (14,18) J1 M64239 [1,18] (18) 84393-84421 C57BL/6J IMGT000082 [20] MAP 1800820-1800875 (24)
TRAJ2 TRAJ2*01 F 14 (19.7 cM) + + 83200-83900 (23) B10.D2-H2dm1 J2 M64239 [1,18] 83418-83483 C57BL/6J IMGT000082 [20] MAP 1799841-1799934 (24)
129/SvJ AE007512 [19] MAP 1655108-1655201 (24)
TRAJ2*02 F 14 (19.7 cM) + + B10.A J-alpha 26 M38103 [2]
TRAJ3 TRAJ3*01 P (2) 14 (19.7 cM) 82401-83200 (23) B10.D2-H2dm1 J3 M64239 [1,18] 82877-82942 C57BL/6J IMGT000082 [20] MAP 1799297-1799386 (24)
129/SvJ AE007512 [19] MAP 1654567-1654656 (24)
TRAJ4 TRAJ4*01 P (16) 14 (19.7 cM) 80601-82400 (23) B10.D2-H2dm1 J4 M64239 [1,18] 81880-81941 129/SvJ AE007512 [19] 1653598-1653659
TRAJ4*02 F 14 (19.7 cM) C57BL/6Jdm1 J4 CT030634 182433-182505 C57BL/6J CT573018 (complement) 133632..133694
IMGT000082 [20] MAP 1798296-1798386 (24)
TRAJ5 TRAJ5*01 F 14 (19.7 cM) + + 78901-80600 (23) B10.A J6.19 M38105 [2] B10.D2-H2dm1 J5 M64239 [1,18] 79368-79429
129/SvJ AE007512 [19] MAP 1651058-1651147 (24)
C57BL/6J IMGT000082 [20] MAP 1795782-1795870 (24)
TRAJ6 TRAJ6*01 F 14 (19.7 cM) + 77751-78900 (23) B10.D2-H2dm1 J6 M64239 [1,18] 78280-78341 C57BL/6J IMGT000082 [20] MAP 1794693-1794782 (24)
129/SvJ AE007512 [19] MAP 1649970-1650059 (24)
TRAJ7 TRAJ7*01 ORF (3) 14 (19.7 cM) - 75801-77750 (23) B10.D2-H2dm1 J7 M64239 [1,18] 77064-77122 C57BL/6J IMGT000082 [20] MAP 1793475-1793561 (24)
129/SvJ AE007512 [19] MAP 1648754-1648840 (24)
TRAJ8 TRAJ8*01 P (1) 14 (19.7 cM) 75301-75800 (23) B10.D2-H2dm1 M64239 [7] 75508-75543 129/SvJ AE007512 [19] MAP 1647198-1647261 (24)
TRAJ8*02 P (36) 14 (19.7 cM) 1791923-1791987 C57BL/6J IMGT000082 [20] MAP 1791923-1791987 (28)
TRAJ9 TRAJ9*01 F 14 (19.7 cM) + + 73001-76050 (23) BALB/c BDFL II X03761 [3]
TRAJ9*02 F 14 (19.7 cM) 1791398-1791483 C57BL/6J IMGT000082 [20] MAP 1791398-1791483 (28) C57BL/Ka X02933 [8] #c
129/SvJ AE007512 [19] MAP 1646674-1646759 (24)
C57BL/6J M64239 [1,18] 74956-75041 (24)
TRAJ10 (21) TRAJ10*01
TRAJ11 TRAJ11*01 F 14 (19.7 cM) - 72351-73000 (23) B10.D2-H2dm1 J9 M64239 [1,18] 72734-72792 C57BL/6J IMGT000082 [20] MAP 1789144-1789230 (24)
129/SvJ AE007512 [19] MAP 1644424-1644510 (24)
TRAJ12 TRAJ12*01 F 14 (19.7 cM) + + 71801-72350 (23) B10.D2-H2dm1 J10 M64239 [1,18] 72149-72207 129/SvJ AE007512 [19] MAP 1643839-1643925 (24)
TRAJ12*02 F 14 (19.7 cM) 1788558-1788642 C57BL/6J IMGT000082 [20] MAP 1788558-1788642 (28)
TRAJ13 TRAJ13*01 F 14 (19.7 cM) + + 70850-71800 (23) B10.D2-H2dm1 J11 M64239 [1,18] 71338-71394 C57BL/6J IMGT000082 [20] MAP 1787746-1787830 (24)
129/SvJ AE007512 [19] MAP 1643028-1643112 (24)
TRAJ14 TRAJ14*01 P (1) 14 (19.7 cM) 70501-70850 (23) B10.D2-H2dm1 M64239 [1,18] 70708-70741 C57BL/6J IMGT000082 [20] MAP 1787116-1787177 (24)
129/SvJ AE007512 [19] MAP 1642398-1642459 (24)
TRAJ15 TRAJ15*01 F 14 (19.7 cM) + + 69201-70500 (23) B10.D2-H2dm1 J12 M64239 [1,18] 70014-70073 C57BL/6J IMGT000082 [20] MAP 1786427-1786514 (24)
129/SvJ AE007512 [19] MAP 1641704-1641791 (24)
TRAJ16 TRAJ16*01 F 14 (19.7 cM) + + 67901-69200 (23) B10.D2-H2dm1 J-alpha 84 X03057 [4] B10.D2-H2dm1 J13 M64239 [1,18] 68729-68789
129/SvJ AE007512 [19] MAP 1640419-1640507 (24)
C57BL/6J IMGT000082 [20] MAP 1785139-1785226 (24)
TRAJ17 TRAJ17*01 F 14 (19.7 cM) + 66501-67900 (23) B10.D2-H2dm1 J14 M64239 [1,18] 67370-67432 C57BL/6J IMGT000082 [20] MAP 1783780-1783870 (24)
129/SvJ AE007512 [19] MAP 1639060-1639150 (24)
TRAJ18 TRAJ18*01 F 14 (19.7 cM) + + 66301-66500 (23) B10.D2-H2dm1 J15 M64239 [1,18] 66372-66437 C57BL/6J IMGT000082 [20] MAP 1782782-1782875 (24)
129/SvJ AE007512 [19] MAP 1638062-1638155 (24)
TRAJ19 TRAJ19*01 ORF (4) 14 (19.7 cM) 65151-66300 (23) B10.D2-H2dm1 M64239 [7] 65983-66043 C57BL/6J IMGT000082 [20] MAP 1782396-1782479 (24)
129/SvJ AE007512 [19] MAP 1637678-1637761 (24)
TRAJ20 TRAJ20*01 P (5) 14 (19.7 cM) 64901-65150 (23) B10.D2-H2dm1 M64239 [7] 65039-65096 C57BL/6J IMGT000082 [20] MAP 1781447-1781531 (24)
129/SvJ AE007512 [19] MAP 1636730-1636816 (24)
TRAJ21 TRAJ21*01 F 14 (19.7 cM) + + 63501-64900 (23) B10.D2-H2dm1 J16 M64239 [1,18] 64387-64443 C57BL/6J IMGT000082 [20] MAP 1780795-1780879 (24)
129/SvJ AE007512 [19] MAP 1636077-1636161 (24)
TRAJ21*02 (F) 14 (19.7 cM) + + C57BL/10 X52448 [9] #c
TRAJ22 TRAJ22*01 F 14 (19.7 cM) + + 61801-63500 (23) B10.D2-H2dm1 J17 M64239 [1,18] 62853-62912 C57BL/6J IMGT000082 [20] MAP 1779253-1779340 (24)
129/SvJ AE007512 [19] MAP 1634543-1634630 (24)
TRAJ23 TRAJ23*01 F 14 (19.7 cM) + + 61501-61800 (23) B10.D2-H2dm1 J18 M64239 [1,18] 61686-61745 C57BL/6J IMGT000082 [20] MAP 1778086-1778173 (24)
129/SvJ AE007512 [19] MAP 1633376-1633463 (24)
TRAJ24 TRAJ24*01 F 14 (19.7 cM) + + 60800-61500 (23) B10.D2-H2dm1 J19 M64239 [1,18] 61244-61305 129/SvJ AE007512 [19] MAP 1632934-1633023 (24)
TRAJ24*02 F (6) 14 (19.7 cM) 1777643-1777735 C57BL/6J IMGT000082 [20] MAP 1777643-1777735 (28)
TRAJ25 TRAJ25*01 ORF (6) 14 (19.7 cM) 60201-60800 (23) B10.D2-H2dm1 M64239 [7] 60421-60477 129/SvJ AE007512 [19] MAP 1632111-1632195 (24)
TRAJ25*02 ORF (35) 14 (19.7 cM) 1776820-1776904 C57BL/6J IMGT000082 [20] MAP 1776820-1776904 (28)
TRAJ26 TRAJ26*01 F (19) 14 (19.7 cM) 1776495-1776584 C57BL/6J IMGT000082 [20] MAP 1776495-1776584 (28) B10.D2-H2dm1 J20 M64239 [1,18] 60097-60155
129/SvJ AE007512 [19] MAP 1631787-1631873 (24)
TRAJ27 TRAJ27*01 F 14 (19.7 cM) + + 57601-59000 (23) B10.D2-H2dm1 J21 M64239 [1,18] 57913-57971 C57BL/6J IMGT000082 [20] MAP 1774308-1774394 (24)
129/SvJ AE007512 [19] MAP 1629603-1629689 (24)
TRAJ28 TRAJ28*01 F 14 (19.7 cM) + 57001-57600 (23) Std:ddY J1031 X17177 [5] B10.D2-H2dm1 J22 M64239 [1,18] 57270-57334
129/SvJ AE007512 [19] MAP 1628960-1629052 (24)
C57BL/6J IMGT000082 [20] MAP 1773666-1773758 (24)
TRAJ29 TRAJ29*01 ORF (8) 14 (19.7 cM) 56101-57000 (23) B10.D2-H2dm1 M64239 [7] 56554-56613 C57BL/6J IMGT000082 [20] MAP 1772951-1773038 (24)
129/SvJ AE007512 [19] MAP 1628244-1628331 (24)
TRAJ30 TRAJ30*01 F 14 (19.7 cM) + + 54301-56100 (23) B10.D2-H2dm1 J23 M64239 [1,18] 55477-55535 C57BL/6J IMGT000082 [20] MAP 1771871-1771957 (24)
129/SvJ AE007512 [19] MAP 1627167-1627253 (24)
TRAJ31 TRAJ31*01 F 14 (19.7 cM) + + 52001-54300 (23) B10.D2-H2dm1 J24 M64239 [1,18] 53507-53563 C57BL/6J IMGT000082 [20] MAP 1769900-1769984 (24)
129/SvJ AE007512 [19] MAP 1625197-1625281 (24)
TRAJ31*02 (F) 14 (19.7 cM) + + C57BL/6 M16677 [11] (20) #c BALB/c AY639036 [13] (20) #c
TRAJ32 TRAJ32*01 F 14 (19.7 cM) + + 51301-52000 (23) B10.D2-H2dm1 J-alpha TT11 X02858 [4] B10.D2-H2dm1 J25 M64239 [1,18] 51716-51781
129/SvJ AE007512 [19] MAP 1623406-1623499 (24)
C57BL/6J IMGT000082 [20] MAP 1768106-1768199 (24)
TRAJ32*02 (F) 14 (19.7 cM) + + FVB/N BC030392 [12] (20) #c BALB/c AY639038 [13] (20) #c
M31647 [14] (20) #c
X01133 [15] (20) #c
TRAJ33 TRAJ33*01 F 14 (19.7 cM) + + 50501-51300 (23) B10.D2-H2dm1 J26 M64239 [1,18] 50978-51034 C57BL/6J IMGT000082 [20] MAP 1767363-1767447 (24)
129/SvJ AE007512 [19] MAP 1622668-1622752 (24)
TRAJ34 TRAJ34*01 F 14 (19.7 cM) + + 50001-50500 (23) BALB/c J1 X02862 [6]
TRAJ34*02 F 14 (19.7 cM) + + 50291..50376 (24) B10.D2-H2dm1 M64239 [1,18] C57BL/6J IMGT000082 [20] MAP 1766704-1766788 (24)
129/SvJ AE007512 [19] MAP 1622009-1622094 (24)
B10.S/9R M20875 [10] #c
129/SvJ AE007512 [19] 1622009-1622094 (24)
TRAJ35 TRAJ35*01 F 14 (19.7 cM) + + 48401-50000 (23) B10.D2-H2dm1 J-alpha pHDS58 X03056 [4] B10.D2-H2dm1 J28 M64239 [1,18] 49394-49458
129/SvJ AE007512 [19] MAP 1621084-1621176 (24)
C57BL/6J IMGT000082 [20] MAP 1765779-1765871 (24)
TRAJ35*02 F (15) 14 (19.7 cM) + + BALB/c J2 X02843 [6]
TRAJ36 TRAJ36*01 P (9) 14 (19.7 cM) - - - 47401-48400 (23) B10.D2-H2dm1 J29 M64239 [1,18] 48023-48085 C57BL/6J IMGT000082 [20] MAP 1764407-1764497 (24)
129/SvJ AE007512 [19] MAP 1619713-1619803 (24)
TRAJ37 TRAJ37*01 F 14 (19.7 cM) + + 46701-47400 (23) B10.D2-H2dm1 J30 M64239 [1,18] 47140-47199 C57BL/6J IMGT000082 [20] MAP 1763523-1763610 (24)
129/SvJ AE007512 [19] MAP 1618830-1618917 (24)
TRAJ38 TRAJ38*01 F 14 (19.7 cM) + + 45901-46700 (23) B10.D2-H2dm1 J31 M64239 [1,18] 46196-46257 C57BL/6J IMGT000082 [20] MAP 1762579-1762668 (24)
129/SvJ AE007512 [19] MAP 1617886-1617975 (24)
TRAJ39 TRAJ39*01 F 14 (19.7 cM) + + 44601-45900 (23) B10.D2-H2dm1 J32 M64239 [1,18] 45584-45646 C57BL/6J IMGT000082 [20] MAP 1761967-1762057 (24)
129/SvJ AE007512 [19] MAP 1617274-1617364 (24)
TRAJ40 TRAJ40*01 F 14 (19.7 cM) + + 42501-44600 (23) B10.D2-H2dm1 J-alpha 19 X03058 [4] B10.D2-H2dm1 J33 M64239 [1,18] 43547-43607
129/SvJ AE007512 [19] MAP 1615237-1615325 (24)
C57BL/6J IMGT000082 [20] MAP 1759926-1760014 (24)
TRAJ41 TRAJ41*01 ORF (10) 14 (19.7 cM) 41701-42500 (23) B10.D2-H2dm1 M64239 [7] 41898-41952 C57BL/6J IMGT000082 [20] MAP 1758276-1758358 (24)
129/SvJ AE007512 [19] MAP 1613588-1613670 (24)
TRAJ42 TRAJ42*01 F 14 (19.7 cM) + + 41001-42500 (23) B10.D2-H2dm1 J34 M64239 [1,18] 41400-41463 C57BL/6J IMGT000082 [20] MAP 1757778-1757869 (24)
129/SvJ AE007512 [19] MAP 1613090-1613181 (24)
TRAJ42*02 (F) 14 (19.7 cM) + + C57BL/6 M16675 [11] #c
TRAJ43 TRAJ43*01 F 14 (19.7 cM) + 39901-41000 (23) B10.D2-H2dm1 J35 M64239 [1,18] 40361-40417 C57BL/6J IMGT000082 [20] MAP 1756747-1756831 (24)
129/SvJ AE007512 [19] MAP 1612051-1612135 (24)
TRAJ43*02 (F) 14 (19.7 cM) + + DBA/2 X55823 [9] #c
TRAJ44 TRAJ44*01 ORF (11) 14 (19.7 cM) + + 39001-39900 (23) B10.D2-H2dm1 J36 M64239 [1,18] 39312-39372 C57BL/6J IMGT000082 [20] MAP 1755695-1755783 (24)
129/SvJ AE007512 [19] MAP 1611002-1611090 (24)
TRAJ45 TRAJ45*01 F 14 (19.7 cM) + + 38201-39000 (23) B10.D2-H2dm1 J-alpha 80 X02859 [4] B10.D2-H2dm1 J37 M64239 [1,18] 38450-38512
129/SvJ AE007512 [19] MAP 1610140-1610230 (24)
C57BL/6J IMGT000082 [20] MAP 1754833-1754923 (24)
TRAJ45*02 (F) 14 (19.7 cM) + + M34206 [16] (20) #c M55635 [17] (20) #c
TRAJ46 TRAJ46*01 P (17) 14 (19.7 cM) 37701-38200 (23) B10.D2-H2dm1 J38 M64239 [1,18] 37958-38019 129/SvJ AE007512 [19] MAP 1609648-1609739 (24)
TRAJ46*02 P (30) 14 (19.7 cM) 1754341-1754431 C57BL/6J IMGT000082 [20] MAP 1754341-1754431 (28)
TRAJ47 TRAJ47*01 ORF (12) 14 (19.7 cM) 36501-38000 (23) B10.D2-H2dm1 J39 M64239 [1,18] 37422-37478 129/SvJ AE007512 [19] MAP 1609112-1609196 (24)
TRAJ47*02 F 14 (19.7 cM) 1753805-1753889 C57BL/6J IMGT000082 [20] MAP 1753805-1753889 (28)
TRAJ48 TRAJ48*01 F 14 (19.7 cM) + + 34901-36500 (23) B10.D2-H2dm1 J40 M64239 [1,18] 35436-35496 C57BL/6J IMGT000082 [20] MAP 1751814-1751900 (24)
129/SvJ AE007512 [19] MAP 1607126-1607214 (24)
TRAJ49 TRAJ49*01 F 14 (19.7 cM) + + 34301-34900 (23) B10.D2-H2dm1 J-alpha 65 X03059 [4] B10.D2-H2dm1 J41 M64239 [1,18] 34318-34376
129/SvJ AE007512 [19] MAP 1606008-1606094 (24)
C57BL/6J IMGT000082 [20] MAP 1750691-1750777 (24)
TRAJ50 TRAJ50*01 F 14 (19.7 cM) + + 32601-34300 (23) B10.D2-H2dm1 J42 M64239 [1,18] 33227-33289 C57BL/6J IMGT000082 [20] MAP 1749595-1749685 (24)
129/SvJ AE007512 [19] MAP 1604917-1605007 (24)
TRAJ51 TRAJ51*01 P (1) 14 (19.7 cM) 31501-32600 (23) B10.D2-H2dm1 M64239 [7] 31879-31920 129/SvJ AE007512 [19] MAP 1603569-1603638 (24)
TRAJ51*02 P (29) 14 (19.7 cM) 1748244-1748314 C57BL/6J IMGT000082 [20] MAP 1748244-1748314 (28)
TRAJ52 TRAJ52*01 F 14 (19.7 cM) + + 29701-31500 (23) B10.D2-H2dm1 J44 M64239 [1,18] 30956-31021 C57BL/6J IMGT000082 [20] MAP 1747321-1747414 (24)
129/SvJ AE007512 [19] MAP 1602646-1602739 (24)
TRAJ53 TRAJ53*01 F 14 (19.7 cM) + 28001-29700 (23) B10.D2-H2dm1 J45 M64239 [1,18] 28282-28347 C57BL/6J IMGT000082 [20] MAP 1744649-1744742 (24)
129/SvJ AE007512 [19] MAP 1599972-1600065 (24)
TRAJ54 (22) TRAJ54*01 P (9) 14 (19.7 cM) 27401-28000 (23) B10.D2-H2dm1 J46 M64239 [1,18] 27632-27685 C57BL/6J IMGT000082 [20] MAP 1743995-1744076 (24)
129/SvJ AE007512 [19] MAP 1599322-1599403 (24)
TRAJ55 TRAJ55*01 P (7) 14 (19.7 cM) + 26000-27400 (23) B10.D2-H2dm1 M64239 [7] 27083-27145 C57BL/6J IMGT000082 [20] MAP 1743444-1743534 (24)
129/SvJ AE007512 [19] MAP 1598773-1598863 (24)
TRAJ56 TRAJ56*01 F 14 (19.7 cM) + + 24601-26000 (23) B10.D2-H2dm1 J47 M64239 [1,18] 24907-24969 C57BL/6J IMGT000082 [20] MAP 1741268-1741358 (24)
129/SvJ AE007512 [19] MAP 1596597-1596687 (24)
TRAJ57 TRAJ57*01 F 14 (19.7 cM) + + 23601-24600 (23) B10.D2-H2dm1 J48 M64239 [1,18] 24150-24212 C57BL/6J IMGT000082 [20] MAP 1740512-1740602 (24)
129/SvJ AE007512 [19] MAP 1595840-1595930 (24)
TRAJ58 TRAJ58*01 F 14 (19.7 cM) + + 22401-23600 (23) B10.D2-H2dm1 J49 M64239 [1,18] 22926-22988 C57BL/6J IMGT000082 [20] MAP 1739285-1739375 (24)
129/SvJ AE007512 [19] MAP 1594616-1594706 (24)
TRAJ59 TRAJ59*01 P (13) 14 (19.7 cM) 21701-22400 (23) B10.D2-H2dm1 M64239 [7] 21779-21840 C57BL/6J IMGT000082 [20] MAP 1738138-1738227 (24)
129/SvJ AE007512 [19] MAP 1593469-1593558 (24)
TRAJ60 TRAJ60*01 P (9) 14 (19.7 cM) 21101-21700 (23) B10.D2-H2dm1 M64239 [7] 21579-21632 C57BL/6J IMGT000082 [20] MAP 1737939-1738019 (24)
129/SvJ AE007512 [19] MAP 1593270-1593350 (24)
TRAJ61 TRAJ61*01 P (9) 14 (19.7 cM) - - - 17701-21100 (23) B10.D2-H2dm1 J50 M64239 [1,18] 20652-20723 C57BL/6J IMGT000082 [20] MAP 1737010-1737109 (24)
129/SvJ AE007512 [19] MAP 1592342-1592441 (24)

#c: rearranged cDNA.

IMGT notes:
  1. (1) Pseudogene because germline J-GENE only identified by the presence of the recombination signal upstream of an open reading frame, but without donor splicing site in 5' and without the conserved J-MOTIF Phe (or Trp)-Gly-X-Gly motif.
  2. (2) Defective DONOR-SPLICE (NNGT instead of NGT, with splicing occurring before G in both cases).Non canonical J-NONAMER: GGCTTCTTC instead of GGTTTTTGT.
  3. (3) In coding_start2, the one used by the human TRAJ7 gene, non canonical J-MOTIF: Leu-Gly-X-Gly instead of Phe-Gly-X-Gly. In coding_start1, canonical J-MOTIF: Phe-Gly-X-Gly, but defective DONOR-SPLICE (NNGT instead of NGT, with splicing occurring before G in both cases).
  4. (4) Non canonical J-HEPTAMER: AAATCTG instead of CACTGTG, and non canonical J-MOTIF: Ser-Gly-X-Glu instead of Phe-Gly-X-Gly.
  5. (5) Defective DONOR-SPLICE (NNGT instead of NGT, with splicing occurring before G in both cases).Non canonical J-HEPTAMER: GCCTGTG instead of CACTGTG, and non canonical J-MOTIF: Val-Glu-X-Val instead of Phe-Gly-X-Gly.
  6. (6) Non canonical J-HEPTAMER: CACTGTA instead of CACTGTG, and non canonical J-MOTIF: Phe-Gly-X-Trp instead of Phe-Gly-X-Gly.
  7. (7) Frameshift in J-REGION.
  8. (8) Non canonical J-NONAMER: GGGGATGAG instead of GGTTTTTGT, and non canonical J-MOTIF: Leu-Gly-X-Glu instead of Phe-Gly-X-Gly.
  9. (9) STOP-CODON in J-REGION.
  10. (10) Non canonical J-NONAMER: GAGGTTGTG instead of GGTTTTTGT, and non canonical J-MOTIF: Leu-Ala-X-Gly instead of Phe-Gly-X-Gly. Defective DONOR-SPLICE (GTN instead of NGT, with splicing occurring before G in both cases).
  11. (11) Non canonical J-MOTIF: Leu-Gly-X-Gly instead of Phe-Gly-X-Gly.
  12. (12) Non canonical J-MOTIF: Cys-Gly-X-Gly instead of Phe-Gly-X-Gly.
  13. (13) Defective DONOR-SPLICE (NNGT instead of NGT, with splicing occurring before G in both cases). Non canonical J-NONAMER: TTTGGGATT instead of GGTTTTTGT, non canonical J-HEPTAMER: GCCCATC instead of CACTGTG, and non canonical J-MOTIF: Phe-Ala-X-Gly instead of Phe-Gly-X-Gly.
  14. (14) B10.D2-H2dm1 is a congenic strain, B10 is the abbreviated symbol of C57BL/10 and D2 the abbreviated symbol of DBA/2J
  15. (15) INSERTION of one nucleotide G, between positions 6 and 7. This INSERTION may represent a sequencing error. This INSERTION may represent a sequencing error. There is also the possibility that the nucleotide deletion in 5' of the J-REGION, during the V-J rearrangement, deletes the nucleotides up to the extra G included as in the productive cDNA X01134 (N. Bosc and M.-P. Lefranc, 28/01/2002).
  16. (16) Defectuous DONOR-SPLICE '|GT' instead of 'N|GT' due to the deletion of one nucleotide g between positions 50 and 51 in J-REGION. The four amino acids in 3' are in a reading frame different from the one expected ('LCAH' instead of 'AVCP').
  17. (17) Defective DONOR-SPLICE (NNGT instead of NGT, with splicing occurring before G in both cases).
  18. (18) Strain of M64239 is according to [1,18]. The flat file up to March 2000 has no information on the strain. Strain BALB/c was added in EMBL flat file in release 62 (03 March 2000) but without explanation.
  19. (19) The deletion of c26 in the TRAJ26 J-REGION, in M64239 and AE007512, is probably due to a sequencing error. The functionality of TRAJ26 was changed (on 19/01/2007) from pseudogene (due to a frameshift) to functional.
  20. (20) Potentiel allele base on the finding of several sequences in cDNA (IMGT Annotation: Yan Wu, Géraldine Folch, Marie-Paule Lefranc 19/01/2009).
  21. (21) No TRAJ10 has been identified in the mouse[7].
  22. (22) LIGM annotation based on reference [1,18].
  23. (23) These J-GENEs have been identified by Dominique Scaviner (LIGM) based on information provided in reference [7].
  24. (24) Position of J-GENE-UNIT
  25. (25) Position of J-REGION
  26. (26) frameshift in J-REGION: insertion of 1 nt causing defectuous DONOR-SPLICE, STOP-CODON in J-REGION
  27. (27) STOP-CODON in J-REGION
  28. (28) frameshift in J-REGION: deletion of 1 nt causing defectuous DONOR-SPLICE
  29. (29) frameshift in J-REGION: insertion of 1 nt causing defectuous DONOR-SPLICE, no DONOR-SPLICE
  30. (30) frameshift in J-REGION: deletion of 1 nt causing defectuous DONOR-SPLICE, no DONOR-SPLICE
  31. (31) frameshift in J-REGION: insertion of 1 nt causing defectuous DONOR-SPLICE
  32. (32) noncanonical J-MOTIF: LGXG instead of FGXG (or WGXG), noncanonical J-NONAMER: ggtttctga instead of ggtttttgt
  33. (33) noncanonical J-NONAMER: gaggttgtt instead of ggtttttgt
  34. (34) noncanonical J-NONAMER: ggggatgag instead of ggtttttgt
  35. (35) noncanonical J-NONAMER: tggttttga instead of ggtttttgt
  36. (36) noncanonical J-MOTIF: FFSG instead of FGXG (or WGXG), noncanonical J-HEPTAMER: aaatctg instead of cactgtg, unexpected J-SPACER length: 7 nt instead of 12 nt, noncanonical J-NONAMER: tgactttgc instead of ggtttttgt
  37. (37) no DONOR-SPLICE
  38. (38) noncanonical J-MOTIF: LGKG instead of FGXG (or WGXG)
IMGT references:
  1. [1] Wilson R.K. et al., Genomics, 13, 1198-1208 (1992). PMID:1505953
  2. [2] Hue I. et al., J. Immunol., 144, 4410-4419 (1990). PMID:2160502
  3. [3] Dembic Z. et al., Nature, 320, 232-238 (1986). PMID:2421164
  4. [4] Winoto A. et al., Nature, 316, 832-836 (1985). PMID:2993908
  5. [5] Toda M. et al., J. Mol. Biol., 202, 219-231 (1988). PMID:3172216
  6. [6] Hayday A.C. et al., Nature, 316, 828-832 (1985). PMID:2993907
  7. [7] Koop B.F. et al., Genomics, 19, 478-493 (1994). PMID:8188290
  8. [8] Arden B. et al., Nature, 316, 783-787 (1985). PMID:3839904
  9. [9] Danska J.S. et al., J. Exp. Med., 172, 27-33 (1990). PMID:1694219
  10. [10] McElligott D.L. et al., J. Immunol., 140, 4123-4131 (1988). PMID:2453567
  11. [11] Spinella D.G. et al., J. Immunol., 138, 3991-3995 (1987). PMID:2953795
  12. [12] Strausberg R.L. et al., Proc. Natl. Acad. Sci. U.S.A., 99, 16899-16903 (2002). PMID:12477932
  13. [13] Hanyecz A. et al., Arthritis Rheum., 48, 2959-2973 (2003). PMID:14558103
  14. [14] Heuer J. et al., J. Immunol., 146, 775-782 (1991). PMID:1846162
  15. [15] Chien Y. et al., Nature, 312, 31-35 (1984). PMID:6548551
  16. [16] Taylor A.H. et al., J. Exp. Med., 172, 1643-1651 (1990). PMID:1701821
  17. [17] Nakajima P.B. et al., Immunogenetics, 35, 190-198 (1992). PMID:1371499
  18. [18] Koop, B.F. et al., Genomics, 13, 1209-1230 (1992). PMID:1505954
  19. [19] Lee I.Y. et al., Unpublished (1998).
  20. [20] Deanna C. et al, PLoS Biol., (9)7 (2011). PMID:21750661
Created:
18/09/1998
Last updated:
28/03/2024
Authors:
Joumana Jabado Michaloud, Dominique Scaviner and Guilhem Zeitoun