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Notes
The genotyping protocol(s) presented here have been optimized for reagents and conditions used by The Jackson Laboratory (JAX).
To genotype animals, JAX recommends researchers validate the assay independently upon receipt of animals into their facility.
Reaction cycling temperature and times may require additional optimization based on the specific genotyping reagents used.
Expected Results
Mutant = 384 bp
Heterozygote = 384 bp and 142 bp
Wild type = 142 bp
JAX Protocol
Protocol Primers
| Primer | 5' Label | Sequence 5' → 3' | 3' Label | Primer Type | Reaction | Note |
|---|---|---|---|---|---|---|
| 21306 | CTG GCT TCT GAG GAC CG | Wild type Forward | A | |||
| 24500 | CAG GAC AAC GCC CAC ACA | Wild type Reverse | A | |||
| 24951 | AGG GCG AGG AGC TGT TCA | Mutant Forward | A | GFP F | ||
| 24952 | TGA AGT CGA TGC CCT TCA G | Mutant Reverse | A | GFP R |
Reaction A
| Component | Final Concentration |
|---|---|
| ddH2O | |
| Kapa 2G HS buffer | 1.30 X |
| MgCl2 | 2.60 mM |
| dNTP KAPA | 0.26 mM |
| 21306 | 0.50 uM |
| 24500 | 0.50 uM |
| 24951 | 0.50 uM |
| 24952 | 0.50 uM |
| Glycerol | 6.50 % |
| Dye | 1.00 X |
| Kapa 2G HS taq polym | 0.03 U/ul |
| DNA |
Cycling
| Step | Temp °C | Time | Note |
|---|---|---|---|
| 1 | 94.0 | -- | |
| 2 | 94.0 | -- | |
| 3 | 65.0 | -- | -0.5 C per cycle decrease |
| 4 | 68.0 | -- | |
| 5 | -- | repeat steps 2-4 for 10 cycles (Touchdown) | |
| 6 | 94.0 | -- | |
| 7 | 60.0 | -- | |
| 8 | 72.0 | -- | |
| 9 | -- | repeat steps 6-8 for 28 cycles | |
| 10 | 72.0 | -- | |
| 11 | 10.0 | -- | hold |
JAX uses a very high speed Taq (~1000 bp/sec), use cycling times recommended for your reagents.
JAX uses a 'touchdown' cycling protocol and therefore has not calculated the optimal annealing temperature for each set of primers.
Strains Using This Protocol
| Stock Number | Strain Name |
|---|---|
| 013205 | 129S-Gt(ROSA)26Sortm1(NOTCH3)Sat/Mmjax |
| 013207 | 129S-Gt(ROSA)26Sortm2(NOTCH3*C455R)Sat/Mmjax |
| 006148 | B6.129X1-Gt(ROSA)26Sortm1(EYFP)Cos/J |
| 005670 | B6.Cg-Gt(ROSA)26Sortm1(rtTA,EGFP)Nagy/J |
| 013206 | B6;129S-Gt(ROSA)26Sortm1(NOTCH3*R1031C)Sat/Mmjax |
| 018422 | B6;FVB-Tg(Aicda-cre)1Rcas/J |
| 036418 | B6;SJL-Gt(ROSA)26Sorem1(TAg)Sac/J |
| 031010 | STOCK Gt(ROSA)26Sortm1(rtTA,EGFP)Nagy TgTn(pb-tetO-Pou5f1,-Klf4,-Myc,-Sox2,-mCherry)250Nagy Tg(Pou5f1-EGFP)1Nagy/J |
| 031012 | STOCK Gt(ROSA)26Sortm1(rtTA,EGFP)Nagy TgTn(pb-tetO-Pou5f1,-Klf4,-Myc,-Sox2,-mCherry)250Nagy/J |
| 005572 | STOCK Gt(ROSA)26Sortm1(rtTA,EGFP)Nagy/J |
| 10 strains use this protocol | |