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Stock No: 009068
Protocol 28774: Standard PCR Assay - Prkca<tm1Jmk> STD PCR
Version 3.2
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 = 400 bp
Heterozygote = 400 bp and 238 bp
Wild Type = 238 bp
Separated by gel electrophoresis on a 1.5% agarose gel.
Sequence
Wt Sequence: agaagagagggggtttgcataaaagtctggagcagtactgctcaagtgtGgaccgaggtgtCctgtagtcacacaggcacatgcctcacacacttca
Mutant Sequence: GTGGGCTCTATGGCTTCTGAGGCGGAAAGAACCAGCTGGGGCTCGACCTCgaccgaggtgtCcctgtagtcacacaggcacatgcctcacacacttca
JAX Protocol
Protocol Primers
| Primer | 5' Label | Sequence 5' → 3' | 3' Label | Primer Type | Reaction | Note |
|---|---|---|---|---|---|---|
| 8441 | CCA AGT GTG AAG TGT GTG AG | A | ||||
| 8442 | AGC TAG GTC CTG TTG GTA AC | A | ||||
| 8444 | GCG CAT CGC CTT CTA TCG C | A |
Reaction A
| Component | Final Concentration |
|---|---|
| ddH2O | |
| Kapa 2G HS buffer | 1.30 X |
| MgCl2 | 2.60 mM |
| dNTP KAPA | 0.26 mM |
| 8441 | 0.50 uM |
| 8442 | 0.50 uM |
| 8444 | 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
This is the only strain that uses this protocol.