For in-depth product & services help, ask our
Technical Information Scientists
Notes
JR 40011 (195 bp) = 75 bp del
JR 40005 (270bp) = no 75 bp del
This is an absence presence assays to detect the point mutation and will not distinguish hemi from hom
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
Sequence
SEQ: lower case is 75 bp del
AGCGGCAGCGAGACTCCCGGGACCTCAGAGTCCGCCACACCAGAAccccacccagtgttggagaagcttcggtccattaataactataaccccaaagattttgactggaatctgaaacatGGCCGGGTTTTCATCATTAAGAGCTACTCTGAGGACGATATTCACCGTTCCATTAAGTATAATATTTGGTGCAGCACAGAGCA
JAX Protocol
Protocol Primers
| Primer | 5' Label | Sequence 5' → 3' | 3' Label | Primer Type | Reaction | Note |
|---|---|---|---|---|---|---|
| 78693 | CTT GTT ACC ATG CTC TGT GC | Reverse | A | |||
| 78695 | CAG TCT TGT CAT TAC CAG CGA | Forward | A |
Reaction A
| Component | Final Concentration |
|---|---|
| ddH2O | |
| Kapa 2G HS buffer | 1.30 X |
| MgCl2 | 2.60 mM |
| dNTPS-kapa | 0.26 mM |
| 78693 | 0.50 uM |
| 78695 | 0.50 uM |
| Glycerol | 6.50 % |
| 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.