Table 2 Predicted and confirmed splicing variants for Clcc1 and Pnkd
Primer Pair | fragment size, bp | Predicted transcripts | Confirmed splice junctions |
|---|---|---|---|
Clcc1 | |||
pr.1 + pr.9 | 208 + (26) | NM_145543^ | ex.1a_ex.3 |
pr.2 + pr.9 | 181+ (26), 252 + (26) | NM_145543^, NM_001177771, XM_006501416^, XM_011240107 | ex.1a/1b_ex.3 |
pr.3 + pr.9 | 220 + (26) | NM_001177771, XM_006501416^, XM_011240107 | ex.1b_ex.3 |
pr.4 + pr.9 | 203 + (26) | NM_001177771, NM_001177770, XM_006501416^, XM_011240107 | ex.1b_ex.3 |
pr.5 + pr.9 | 172 + (26) | NM_001177771, NM_001177770, XM_006501416^, XM_011240107 | ex.1b_ex.3 |
pr.6 + pr.9* | 293 + (26) | NM_001177770, XM_011240107 | none |
pr.7 + pr.9 | 300 + (26) | NM_001177771, novel uncharacterized | ex.2_ex.3 |
pr.2 + pr.8* | 199 + (26) 270 + (26) | NM_001177771 | none |
pr.3 + pr.8* | 238 + (26) | NM_001177771 | none |
pr.4 + pr.8* | 221 + (26) | NM_001177771 | none |
pr.6 + pr.8* | 453 + (26) | none | none |
pr.7 + pr.8 | 159 + (26) | NM_001177771, novel uncharacterized | ex.2 |
pr.10 + pr.11 | 432 + (26) | all transcripts | ex.4_ex.5_ex.6 |
Pnkd | |||
pr.1 + pr.2 | 246 + (26) | NM_025580, NM_001039509^ | ex.2_ex.3 |
pr.3 + pr.4* | 289 + (26) | NM_025580 | none |
pr.5 + pr.6 | 167 + (26) | NM_019999^ | ex.5 |
pr.5 + pr.7 | 282 + (26) | NM_019999^ | ex.5_ex.6 |
pr.8 + pr.9 | 360 + (26) | all transcripts | 3’-UTR |