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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 = A, A
Wild type = G, T
>chr16:35298411+35298488 78bp TCACTGGGCCTTCTGTCC AGCAGGCGCCGATTGTAG
Sequence
gtttcaggggcattttggtctcctctcactgggccttctgtccccagGCCACAGAAGAGAA(g/a)GAGGAGA(t/a)GGAGGAGCTGCAGGCCTACAATCGGCGCCTGCTGCACAACATTCTGCCCAAGGACGTGGCTGCCCACTTCCTGGCCCGGGAACGGCGCAATGACGAGCTGTACTACCAATCGTG
JAX Protocol
Protocol Primers
| Primer | 5' Label | Sequence 5' → 3' | 3' Label | Primer Type | Reaction | Note |
|---|---|---|---|---|---|---|
| 47290 | TCA CTG GGC CTT CTG TCC | Forward | A | |||
| 47291 | AGC AGG CGC CGA TTG TAG | Reverse | A | |||
| 47292 | Fluorophore-1 | AGG AGG AGA TGG AGG AGC TG | Quencher-1 | WT Probe | ||
| 47293 | Fluorophore-2 | AAA GAG GAG AAG GAG GAG CTG | Quencher-2 | MUT Probe |
Reaction A
| Component | Final Concentration |
|---|---|
| Kapa Probe Fast QPCR | 1.00 X |
| ddH2O | |
| 47290 | 0.40 uM |
| 47291 | 0.40 uM |
| Wt Probe | 0.15 uM |
| Mutant Probe | 0.15 uM |
| DNA |
Cycling
| Step | Temp °C | Time | Note |
|---|---|---|---|
| 1 | 95.0 | -- | |
| 2 | 95.0 | -- | |
| 3 | 60.0 | -- | |
| 4 | -- | repeat steps 2-3 for 40 cycles | |
| 5 | 40.0 | -- | Forever |
JAX uses a very high speed Taq (~1000 bp/sec), use cycling times recommended for your reagents.
Strains Using This Protocol
This is the only strain that uses this protocol.