Table 1.
Comparison of the rhesus macaque TRBV genes and their best human homologues.
| Gene nucleotide sequence |
Exon nucleotide sequence |
Exon amino acid sequence3 |
Note | |||||
|---|---|---|---|---|---|---|---|---|
| Rhesus macaque gene |
Best human homologue1 |
Percent identity |
Alignment length2 |
Percent identity |
Alignment length |
Percent identity |
Alignment length |
|
| TRBV1-1 | TRBV1 | 93.3 | 489 | 93.1 | 333 | 86.5 | 111 | 8 |
| TRBV1-2 | TRBV1 | 91.0 | 490 | 90.1 | 334 | 64.0 | 111 | 8 |
| TRBV1-3 | TRBV1 | 85.5 | 496 | 82.8 | 337 | 8 | ||
| TRBV2-1 | TRBV2 | 93.5 | 475 | 94.8 | 347 | 89.6 | 115 | |
| TRBV2-2 | TRBV2 | 93.7 | 475 | 93.7 | 347 | 89.6 | 115 | |
| TRBV2-3 | TRBV2 | 94.3 | 475 | 93.9 | 347 | 87.8 | 115 | |
| TRBV3-1 | TRBV3-1 | 92.6 | 499 | 93.6 | 344 | 86.8 | 114 | |
| TRBV3-2 | TRBV3-1 | 92.8 | 499 | 92.4 | 344 | 84.2 | 114 | |
| TRBV3-3 | TRBV3-1 | 90.8 | 499 | 93.9 | 344 | 87.7 | 114 | |
| TRBV3-4 | TRBV3-1 | 92.6 | 499 | 93.6 | 344 | 86.0 | 114 | |
| TRBV4-1 | TRBV4-1 | 92.7 | 493 | 93.6 | 344 | 89.5 | 114 | |
| TRBV4-2 | TRBV4-1 | 94.7 | 493 | 94.8 | 344 | 93.0 | 114 | |
| TRBV4-3 | TRBV4-3 | 91.2 | 502 | 93.0 | 344 | 91.2 | 114 | |
| TRBV5-1 | TRBV5-1 | 93.5 | 509 | 93.9 | 343 | 7 | ||
| TRBV5-2 | TRBV5-1 | 84.8 | 512 | 83.7 | 343 | 7, 8 | ||
| TRBV5-3 | TRBV5-3 | 93.1 | 509 | 93.4 | 346 | 86.1 | 115 | |
| TRBV5-4 | TRBV5-8 | 93.1 | 506 | 93.6 | 343 | 88.6 | 114 | |
| TRBV5-5 | TRBV5-6 | 90.9 | 507 | 91.6 | 344 | 81.6 | 114 | |
| TRBV5-6 | TRBV5-6 | 94.7 | 505 | 95.0 | 343 | 91.2 | 114 | |
| TRBV5-7 | TRBV5-5 | 93.7 | 506 | 95.0 | 343 | 91.2 | 114 | |
| TRBV5-8 | TRBV5-6 | 93.1 | 506 | 93.9 | 343 | 90.4 | 114 | |
| TRBV5-9 | TRBV5-6 | 94.5 | 505 | 95.3 | 343 | 92.1 | 114 | |
| TRBV5-10 | TRBV5-5 | 92.1 | 506 | 92.1 | 343 | 87.7 | 114 | |
| TRBV6-1 | TRBV6-1 | 91.9 | 472 | 93.6 | 344 | 87.7 | 114 | |
| TRBV6-2 | TRBV6-1 | 94.3 | 351 | 93.9 | 295 | 87.6 | 97 | 4 |
| TRBV6-3 | TRBV6-5 | 93.9 | 475 | 94.2 | 344 | 88.6 | 114 | |
| TRBV6-4 | TRBV6-5 | 92.0 | 475 | 92.4 | 344 | 84.2 | 114 | |
| TRBV6-5 | TRBV6-9 | 91.5 | 424 | 90.8 | 355 | 84.7 | 111 | 5 |
| TRBV6-6 | TRBV6-5 | 92.2 | 475 | 94.5 | 344 | 87.7 | 114 | |
| TRBV6-7 | TRBV6-5 | 92.4 | 475 | 93.9 | 344 | 86.8 | 114 | |
| TRBV6-8 | TRBV6-5 | 91.0 | 390 | 91.3 | 298 | 83.8 | 99 | 5 |
| TRBV7-1 | TRBV7-1 | 83.6 | 329 | 93.1 | 290 | 83.3 | 96 | 4, 8 |
| TRBV7-2 | TRBV7-3 | 87.7 | 261 | 88.3 | 222 | 83.6 | 73 | 4 |
| TRBV7-3 | TRBV7-3 | 90.6 | 500 | 91.9 | 347 | 86.1 | 115 | |
| TRBV7-4 | TRBV7-7 | 89.8 | 549 | 90.8 | 347 | 84.3 | 115 | |
| TRBV7-5 | TRBV7-8 | 91.8 | 525 | 92.8 | 347 | 87.0 | 115 | |
| TRBV7-6 | TRBV7-6 | 89.7 | 532 | 92.8 | 347 | 87.8 | 115 | |
| TRBV7-7 | TRBV7-4 | 89.6 | 509 | 90.8 | 347 | 82.6 | 115 | |
| TRBV7-8 | TRBV7-6 | 87.4 | 546 | 89.2 | 361 | 37.2 | 121 | 8 |
| TRBV7-9 | TRBV7-6 | 92.8 | 538 | 94.5 | 347 | 89.6 | 115 | |
| TRBV7-10 | TRBV7-9 | 90.7 | 516 | 92.2 | 347 | 82.6 | 115 | |
| TRBV8-1 | TRBV8-2 | 86.7 | 511 | 85.1 | 336 | 30.4 | 115 | 8 |
| TRBV9-1 | TRBV9 | 94.7 | 514 | 96.2 | 343 | 93.9 | 114 | |
| TRBV10-1 | TRBV10-1 | 96.5 | 489 | 96.2 | 344 | 93.9 | 114 | |
| TRBV10-2 | TRBV10-2 | 95.1 | 489 | 95.3 | 344 | 93.9 | 114 | |
| TRBV10-3 | TRBV10-3 | 95.5 | 489 | 96.5 | 344 | 93.0 | 114 | |
| TRBV11-1 | TRBV11-1 | 93.3 | 490 | 93.9 | 347 | 87.0 | 115 | |
| TRBV11-2 | TRBV11-2 | 94.4 | 480 | 94.5 | 347 | 91.3 | 115 | |
| TRBV11-3 | TRBV11-3 | 93.9 | 477 | 94.2 | 347 | 88.7 | 115 | |
| TRBV12-1 | TRBV12-2 | 92.7 | 482 | 93.0 | 344 | 85.2 | 115 | |
| TRBV12-2 | TRBV12-3 | 91.8 | 486 | 93.1 | 347 | 87.8 | 115 | |
| TRBV12-3 | TRBV12-3 | 91.8 | 486 | 92.5 | 347 | 87.8 | 115 | |
| TRBV12-4 | TRBV12-5 | 94.9 | 486 | 94.5 | 347 | 92.2 | 115 | |
| TRBV13-1 | TRBV13 | 94.5 | 524 | 95.7 | 374 | 89.5 | 124 | |
| TRBV14-1 | TRBV14 | 93.6 | 482 | 95.1 | 347 | 89.6 | 115 | |
| TRBV15-1 | TRBV15 | 94.3 | 508 | 94.8 | 344 | 89.5 | 114 | |
| TRBV16-1 | TRBV16 | 94.7 | 493 | 94.8 | 347 | 88.7 | 115 | |
| TRBV18-1 | TRBV18 | 95.0 | 658 | 94.8 | 347 | 90.4 | 115 | |
| TRBV19-1 | TRBV19 | 95.5 | 516 | 95.6 | 344 | 94.7 | 114 | |
| TRBV20-1 | TRBV20-1 | 91.9 | 713 | 92.5 | 335 | 83.8 | 111 | |
| TRBV21-1 | TRBV21-1 | 94.0 | 500 | 94.0 | 348 | 19.5 | 118 | |
| TRBV22-1 | TRBV22-1 | 78.3 | 493 | 72.7 | 348 | 6, 8 | ||
| TRBV23-1 | TRBV23-1 | 92.0 | 536 | 93.9 | 347 | 91.3 | 115 | |
| TRBV24-1 | TRBV24-1 | 95.2 | 517 | 95.9 | 345 | 90.4 | 115 | |
| TRBV25-1 | TRBV25-1 | 94.7 | 507 | 95.1 | 344 | 90.4 | 114 | |
| TRBV26-1 | TRBV26 | 94.5 | 524 | 95.1 | 344 | 73.9 | 115 | 8 |
| TRBV27-1 | TRBV27 | 94.9 | 512 | 95.6 | 344 | 93.9 | 114 | |
| TRBV28-1 | TRBV28 | 93.3 | 523 | 96.2 | 344 | 93.9 | 114 | |
| TRBV29-1 | TRBV29-1 | 94.1 | 661 | 96.4 | 335 | 93.7 | 111 | |
| TRBV30-1 | TRBV30 | 94.3 | 743 | 96.1 | 335 | 93.7 | 111 | |
| TRBVA-1 | TRBVA | 92.7 | 493 | 91.1 | 316 | 6, 8 | ||
| TRBVB-1 | TRBVB | 88.3 | 563 | 87.4 | 422 | 8 | ||
| Average percent identity | 92.2 | 92.9 | 85.3 | |||||
The best human homologue had the highest percent identity with the rhesus macaque gene nucleotide sequence.
The alignment length is the total length across both the aligned rhesus macaque and human gene/exon sequences.
The exon amino acid sequence was translated in the frame that yielded a start codon at the 5’ end of the exon. Comparisons of the exon amino acid sequences were omitted for TRBV genes in which no start codon was found. For partial rhesus macaque exons missing a portion of sequence at the 5’ end, the sequences were translated in the frame in which the start codon was found in the human homologues.
The rhesus macaque gene is a partial sequence, with a missing portion of sequence at the 5’ end of the gene. The percent identities between rhesus macaque and human genes and exons are calculated with the missing portion of rhesus macaque gene excluded.
The rhesus macaque gene is a partial sequence, with a missing portion of sequence at the 3’ end of the gene. The percent identities between rhesus macaque and human genes and exons are calculated with the missing portion of rhesus macaque gene excluded.
The human NCBI reference gene was a partial sequence so the human IMGT reference gene sequence was used for these comparisons.
There was some ambiguity in the identification of the exons for the TRBV5-1 and TRBV5-2 genes (see Table 1 in Supporting Information).
The rhesus macaque exon amino sequence contained stop codons or, for those genes in which no start codon was found, the amino acid sequences in all three translation frames contained stop codons.