Part 1 - Phage availability and characteristics

Phages listed in this table are those obtained by screening of phage libraries which were constructed with the indicated human cell line genomic DNA. These phages have been used to establish the restriction map of the human TRG locus, to sequence the human TRG genes and to isolate specific TRG probes (for review see [5]).

Schematic maps of the phages are available at the foot of the JCRB phage pages.

Phage name Cell line (1) Insert size (kb) Gene content Rearrangement Functionality Insert extension ATCC number HGMP number JCRB number Accession number (2)
lambdaA1 [4] AT5B1 16.3 TRGC1-ex2, -ex3, TRGJP2, TRGJ2, TRGC2-ex1 From about 3 kb upstream of TRGC1 exon 2 to just downstream of TRGC2 exon 1. 1159 HG275
lambdaA6 [2] AT5B1 15.7 TRGVA, TRGV9-J1, TRGC1-ex1 V9-J1 Unproductive From about 2.4 kb upstream of TRGVA to about 2.8 kb downstream of TRGC1 exon 1. 65674/65675 1160 HG276 X07208
X08086
M12957
lambdaD7 [1][4] D-PLL 15.8 TRGC1-ex2, -ex3, TRGJP2, TRGJ2, TRGC2-ex1 From about 1.9 kb upstream of TRGC1 exon 2 to about 1.4 kb downstream of TRGC2 exon 1. 65684/65685 1169 HG282 M15002
lambdaD11 [1] D-PLL 14.2 TRGC1-ex2, -ex3, TRGJP2, TRGJ2, TRGC2-ex1 From just upstream of TRGC1 exon 2 to about 1.4 kb downstream of TRGC2 exon 1. 1170 HG283 X51470
M12961/X03435
M15001
lambdaD18 [1,4] D-PLL 17.3 TRGJP1, TRGJP, TRGJ1, TRGC1-ex1 From about 3.6 kb upstream of TRGJP1 to about 2.8 kb downstream of TRGC1 exon 1. 65686/65687 1154 HG270
lambdaD19 [1] D-PLL 15.4 TRGJ1, TRGC1, TRGJP2 From about 1.8 kb upstream of TRGJ1 to about 0.3 kb downstream of TRGJP2. 1171 HG284 X02758
M14996
M14997
M14998
lambdaF1 [2] F8 primary T cell tumor 15.5 TRGV1, TRGV2-JP, TRGJ1 V2-JP Unproductive From approximately 5.0 kb upstream of TRGV1 to 1.6 kb downstream of TRGJ1. 65676/65677 1155 HG271 M12951
lambdaF4 [4] F8 primary T cell tumor 17.1 TRGC1-ex2, -ex3, TRGJP2, TRGJ2, TRGC2-ex1 From about 2.5 kb upstream of TRGC1-ex2 to about 1.7 kb downstream of TRGC2 exon 1. 1156 HG272
lambdaF6 [2] F8 primary T cell tumor 13.3 TRGV1, TRGV2, TRGV3-J1 V3-J1 Productive(3) From about 0.5 kb upstream of TRGV1 to 3.6 kb downstream of TRGJ1. 65678/65679 1157 HG273 M12953
lambdaF8 [4] F8 primary T cell tumor 11.4 TRGJ2, TRGC2-ex1, -ex2 From just upstream of TRGJ2 to 2.5 kb downstream of TRGC2 exon 2. 1158 HG274
lambdaK20 [3] Karpas 1010 20.3 TRGV8, TRGVA, TRGV9-J1 V9-J1 Productive (3) From about 4.5 kb upstream of TRGV8 to 0.6 kb downstream of TRGJ1. 1163 HG280 X15273
M13434
X15274
M13823/X03436
X05504
lambdaRgamma [1] Raji 12 TRGJP1, TRGJP, TRGJ1, TRGC1-ex1 From about 0.8 kb upstream of TRGJP1 to just downstream of TRGC1 exon 1. 1164 HG281 X08084
X58182
M12950
M12960/X03434
X51469
M14999
X02757
lambdaS6 [2] SUPT1 18 TRGV2, TRGV3, TRGV4-J2 V4-J2 Productive(3) From about 4.3 kb upstream of TRGV2 to 3.8 kb downstream of TRGJ2. 65682/65683 1161 HG277 X15272
M12955
M13584 (6)
lambdaS9 [4] SUPT1 14 TRGC2 From about 3.5 kb upstream of TRGC2 exon 1 to 0.8 kb downstream of TRGC2 exon 3. 1165 HG278 M15004
M15005
M15007 (6)
lambdaS12 [2][3] SUPT1 16 TRGV2, TRGV3-J2, TRGC2-ex1, -ex2R V3-J2 Productive(3) From about 0.5 kb upstream of TRGV2 to 2.5 kb downstream of TRGC2 exon 2R. 65680/65681 1162 HG279 M13824/X03437 (6)
lambdaSH1 [4] B cell line SH 14.3 TRGC1-ex3, TRGJP2, TRGJ2, TRGC2-ex1 From about 1.8 kb upstream of TRGC1 exon 3 to 1.3 kb downstream of TRGC2 exon 1(4). 1147 HG263
lambdaSH2 [2] B cell line SH 14.5 TRGV1, TRGV2, TRGV3 From about 3.5 kb upstream of TRGV1 to 1.6 kb downstream of TRGV3. 1148 HG264 (5)
lambdaSH3 [2] B cell line SH 18.8 TRGV1, TRGV2, TRGV3 From about 9 kb upstream of TRGV1 to just downstream of TRGV3. 65666/65667 1149 HG265 (5)
lambdaSH4 [2] B cell line SH 17.6 TRGV1, TRGV2, TRGV3 From about 7.8 kb upstream of TRGV1 to just downstream of TRGV3. 1150 HG266 X15269
M12949
X15270
M13429
X15271
M13430
(5)
lambdaSH5 [2] B cell line SH 20.2 TRGV1, TRGV2, TRGV3 From about 6.7 kb upstream of TRGV1 to 4.2 kb downstream of TRGV3. 1151 HG267 (5)
lambdaSH6 [5] B cell line SH 17.5 TRGJP1, TRGJP, TRGJ1 From about 7.6 kb upstream of TRGJP1 to about 3 kb downstream of TRGJ1. 65670/65671 1152 HG268
lambdaSH7 [2] B cell line SH 14.3 TRGV5P, TRGV6, TRGV7 From about 0.4 kb upstream of TRGV5P to about 4 kb downstream of TRGV7. 65672/65673 1153 HG269 M13431
M13432
M13433
lambdaSP11 [6] SP-F7 (T cell clone) 15.2 TRGV2-JP1, TRGJP, TRGJ1, TRGC1-ex1 V2-JP1 Productive(3) 65834/65835 HG290 X57737/S72759
lambdaSP14 [6] SP-F7 (T cell clone) 15.2 TRGV2, TRGV3-"J1rs", TRGJP-V9 (inverted orientation of V9-JP) V3-"J1rs" Unproductive V9-JP Unproductive Unusual rearrangement abutting TRGV3 to TRGJ1 recombination signal ("J1rs") in an inverted orientation. (lambdaSP14 and lambdaSP19 are end clones from the same inversion (47 kb) event). 65836/65837 HG291 X57739/S72844
X57738/S72840
lambdaSP19 [6] SP-F7 (T cell clone) 14.6 TRGV5, TRGV4, "TRGV3rs"-J1, TRGC1 (inverted orientation of V5-V4 and "V3rs"-J1) "V3rs"-J1 Unproductive Unusual rearrangement abutting the TRGV3 recombination signal ("TRGV3rs") to TRGJ1 in an inverted orientation. (lambdaSP14 and lambdaSP19 are end clones from the same inversion (47 kb) event). 65838/65839 HG292 X57740

Part 2 - Phage restriction fragments and localisation of the insert restriction sites

The information in this table allows to check the phage digested DNA.

Phage name Sizes of the phage restriction digest fragments (7) Localisation of the insert restriction sites ( kb from the 5' insert end except if mentioned) (7)
BamHI BglII EcoRI HindIII KpnI PvuI SacI SmaI XbaI XhoI BamHI EcoRI HindIII KpnI SacI XhoI
lambdaA6 [2] 17
15
7.2
4
1.5		 20
9.1(X2)
6.3
0.9		 19
9.2
6
5.2
4.6		 20
12
9.1
3.2		 20
16
9.1		 6.3
15.3
16
(9)
lambdaD7 [1,4] 23
12
8.2		 20
9.2
6.2(X2)
4.4		 20
11
6
5.8
3.7		 20
11
9.2
3.2
2.4		 20
11
9.2
3.2
3.1
lambdaD18 [1,4] >23
14
2.7
2.2(X2)
1.7
1.5
1.3		 23
12
8.2		 20
9.2
7
4.4(X2)
1.2
0.9		 20
13.5
5.8
4.6
2.5		 20
11
9.2
4.4
1.7
1.25		 20
9.2
9
7.8
1.25		 3.5
4.8
6.3
8.6
10.3
12.4
15.2
(8)
lambdaF1 [2] >23
12
8.2		 20
9.2
5(X2)
3
1.9
1.7		 >23
9.2
1.7		 20
13.5
9.2
4.6		 20
16
9.2
2		 2.9
4.5
9.1
13.6
15.5
lambdaF6 [2] 17
11
4.8
3.6
1.8(X2)
1.5		 22
13
7.8		 20
9.1
4.4(X2)
4.1		 20
11
6.2
5.8		 20
14
9.1		 3.3
5.1
10.5
lambdaS6 [2] 23
12
8.2		 20
9.2
4.9(X2)
4.4(X2)		 20
14
7.2
5.8		 20
17
9.2
0.96		 20
18
9.2		 2.9
4.6
11.2
13.6
14.5
lambdaS12 [2,3] 20
15
3.7
3.6
0.5		 19
17
3.9
2.9
1.9
1.6		 20
9.4
8
4.4
2.9
1.5
0.8		 20
18
9		 3
3.5
7.2
10.8		 4.6
12
14.8
16
(9)
lambdaSH3 [2] 17.5
10(X2)
4.9
3.9
1.5		 23
13
8		 20
9
6
4.7
4.4
1.5
1.1		 20
19
9		 20
16
9
2.3		 0.6
0.7
0.8
8.6
13.1
17.7
18.8
lambdaSH6 [5] 18
9.8
8.8
7.5
1.5		 23
12.5
7.6		 20
9
5.6
4.4
3.3
2.8
1.2		 20
16
5.4(X2)		 20
9.2
8.8
5.2
3.5		 2.8
8.6
9.7
14.1
17.5
lambdaSH7 [2] 18
14
5.8
4.4
1.8
1.5		 23
13
7.9		 20
9
5.6
4.4
3.8
0.9		 20
9.5
9
5.8		 20
15
9		 4.2
9.7
13.4
14.3
lambdaSP11 [6] 20
12
9
2.9		 20
10.5
5.4
2.25
1.9
1.6
1.25
1.1
0.8		 22
12
3.7
2.9
2.2
1.6
1.4		 20
15
8		 20
9.5
6.4
4.2
1.8
1.1
0.8		 19
12
6
4.8
2.5		 12.5 1.1
3.3
4.2
5.6
7.4
9
14.1
15		 2.8
4.2
6.5
8.2
10.5
13.3		 1.3
10		 8
lambdaSP14 [3] 20
12
9
3.6		 21
12
5.8
2.3
1.9
1.3		 22
15
7.5		 19
9.5
6.5
4.2
4		 18
8.5
7
6.2
5		 20
15
9.5		 1.4
3.2
9.1
10.7
11.9
13.8		 1.3
5.8
6.4
8.3
9.9
12.1
14		 3.4
3.9
8.1
lambdaSP19 [3] 22
20		 27
8
7.5		 23
10
3.4
2.8
2.5		 22
11
5
4.8		 20
15
8.5		 20
9.4
8.5
4.4		 19
13
6.4
4.6		 14.6 3.05
6
8.3
11		 3.15
3.6
7.8
12.5		 1.65
5.4
5.8
12.1
IMGT notes:
(1) Human cell lines from which DNA was extracted for the construction of the phage genomic libraries. They are either alpha-beta T cell or B cell lines. See note (3).
(2) Accession numbers of sequences isolated from the phages.
(3) "Productive" is according to IMGT definition of Functionality based on sequence analysis. All the data on the TRG genes have been obtained from cells which do not express the TcR gamma-delta receptor. When cell lines expressing the TcR gamma chain have been identified [Brenner, M.B. et al., Nature, 322, 145-149 (1986)] the whole of the data on the TRG gene organisation and rearrangements, obtained in alpha-beta T cells and B cells[1-4], has been confirmed.
(4) Aberrant insert of 6 kb in 5' limited downstream by a BamHI site.
(5) lambdaSH2, lambdaSH3, lambdaSH4 and lambdaSH5 are overlapping phages obtained from the same B cell line SH genomic library [2]. They have identical restriction maps with the EcoRI, HindIII, BamHI and SacI enzymes, for the overlapping regions. Further characterization and probably sequencing are necessary to know if they are from the same (or from allelic) chromosome(s). TRGV1, TRGV2, TRGV3 have been sequenced from lambdaSH4.
(6) Further characterization and probably sequencing are necessary to know if lambdaS9 overlaps with lambdaS6 or lambdaS12.
(7) Sizes in kb are from experimental data and are approximate.
(8) Approximate kb from the 5' BamHI site.
(9) Linker site.
References:
[1] Lefranc, M.-P. and Rabbitts, T.H., Nature, 316, 464-466 (1985).
[2] Lefranc, M.-P. et al., Cell, 45, 237-246 (1986).
[3] Lefranc, M.-P. et al., Nature, 319, 420-422 (1986).
[4] Lefranc, M.-P. et al., Proc. Natl. Acad. Sci. USA, 83, 9596-9600 (1986).
[5] Lefranc, M.-P. et al., Eur. J. Immunol., 19, 989-994 (1989).
[6] Alexandre, D. et al., Int. Immunol., 3, 973-982 (1991).
[7] Lefranc, M.-P. et al., Cytogenet. Cell. Genet., 51, 1031 (1989).