Table 2 Summary of the different 5′RACE and RT-PCR experiments and the obtained rearrangement types
Locus | Animal tissue | Experiment | FWD primer name | REV primer name | Total number of non-redundant clonotypes | Number of non-redundant out-of-frame clonotypes | Number of non-redundant in-frame clonotypes | Non-redundant in-frame clonotypes by rearrangement type | GenBank (GEDI) accession numbers |
|---|---|---|---|---|---|---|---|---|---|
TRG | Blood M | 5′RACE | -- | TC3L/TC1L1/TC1L2 | 7a | (7) 4 | 3 | 1 TRGV1*01–TRGJ3*01 | HG328298 |
2 TRGV2*01–TRGJ1*01 | HG328299/300 | ||||||||
Blood M | RT-PCR | TV1LU | TC3L/TC1L2 | 8 | (8) 1 | 7 | 1 TRGV1*01–TRGJ2*01 | HG328291 | |
TV7LU | TC3L/TC1L2 | 4 TRGV2*01–TRGJ3*01 | HG328292/93/94/95 | ||||||
1 TRGV2*01–TRGJ1*01 | HG328296 | ||||||||
1 TRGV2*01–TRGJ2*01 | HG328297 | ||||||||
Blood L | 5′RACE | -- | TC3L/TC1L1/TC1L2 | 11a | (11) 6 | 5 | 2 TRGV1*01–TRGJ2*01 | HG328286/8 | |
1 TRGV1*02–TRGJ2*01 | HG328287 | ||||||||
2 TRGV2*01–TRGJ3*01 | HG328289/90 | ||||||||
Blood K | RT-PCR | TV1LU | TC3L/TC1L2 | 20 | (20) 5 | 15 | 6 TRGV1*01–TRGJ2*01 | HG328305/7/8/10/11/14 | |
TV7LU | TC3L/TC1L2 | 5 TRGV1*01–TRGJ3*01 | HG328306/9/12/13/15 | ||||||
3 TRGV2*01–TRGJ3*01 | HG328301/02/04 | ||||||||
1 TRGV2*01–TRGJ1*01 | HG328303 | ||||||||
Skin C | RT-PCR | TV1LU | TC3L/TC1L3 | 13 | (13) 4 | 9 | 4 TRGV1*01–TRGJ2*01 | HG328316/17/18/19 | |
TV7LU | TC3L/TC1L3 | 1 TRGV1*02–TRGJ2*01 | HG328320 | ||||||
1 TRGV1*02–TRGJ1*01 | HG328321 | ||||||||
3 TRGV2*01–TRGJ3*0 | HG328322/3/4 | ||||||||
TRD | Blood M | 5′RACE | TD1C1L/TD1C2L/TD2CL | 5b | (5) 2 | 3 | 1 TRDV1*01–TRDJ4*01 | LN610749 | |
1 TRDV1*01–TRDJ4*01 c | LN610748 | ||||||||
1 TRDV2*01–TRDJ4*01 | LN610747 | ||||||||
TRA | Blood L | 5′RACE | TA1C1L | 41 | (41) 0 | 41 | d | LN610706–LN610746 | |
TA1C2L | |||||||||
TA1C3L |