Taqman qPCR protocols are run on a real time PCR instrument. Use an appropriate instrument specific Fluorophore/Quencher combination.
>chr17:46830210-46830355 146bp AGGCCAGGGTGTTGCTTAGT ACTAGCTCCAGTGAAATCTCTCCA
Mut = 132 bp
Wt = 146 bp
Fam = Mut
Hex = Wt
Wt Sequence (deletions in lower case):
TTCCTTTTGGTTTTACTTGTTATTTTTTTTAGTAAGTCTGGGGATGGCAGGCCAGGGTGTTGCTTAGTTTTATTTTTAGCTCACCAAGcaagggcaaggtccaagttcaccccccaggactgaagcagtaggcgcttcccagagacagaagtgtagaaaatggtttaaaatggagagatttcactggagctagtgtttcgtttctttttgccttatataactatcagcagctatttacgtagaagtagcagtacttacttgtttcactctctcacttccttcttttctagagacccacaagcattgaactattttctgcacggacctagcagtaaatcggtaagtgacagacaagtgtctcaggctcggcttttgtctctccaagccctgcagtaactgccatgttgaattccccctctgcagggcagcgatgatgtgacgaacgcagggtattctgcagccaattctaattcaattttcgccaactccacggtgagtgctgaaaaccagacctgaagcctttctgtctcaaggaaaccttacaagagaggcttcgattgcctctgtagagtgcaaagaatcattacctcaccttgtgactgacaggagagggaaaacctGGATGACAGTATGTCAGTGCTCTGTTTGTCATAGAATCAGGCTCTTAAGTTTCTTCTTGCTTTTGACATTCCTCTATGTTACGTATGCGTGAG
This mutation is a 532 bp deletion beginning at Chromosome 17 position 46,829,784 bp and ending after 46,830,315 bp (GRCm38/mm10).
Primer | 5' Label | Sequence 5' → 3' | 3' Label | Primer Type | Reaction | Note |
---|---|---|---|---|---|---|
54810 | AGG CCA GGG TGT TGC TTA GT | Common | A | |||
54811 | ACT AGC TCC AGT GAA ATC TCT CCA | Wild type Reverse | A | |||
54812 | TCA CGC ATA CGT AAC ATA GAG G | Mutant Reverse | A | |||
54813 | Fluorophore-1 | ACT GAA GCA GTA GGC GCT TCC | Quencher-1 | WT Probe | ||
54814 | Fluorophore-2 | CAA GGG ATG ACA GTA TGT CAG TGC | Quencher-2 | MUT Probe |
Component | Final Concentration |
---|---|
Kapa Probe Fast QPCR | 1.00 X |
ddH2O | |
54810 | 0.40 uM |
54811 | 0.40 uM |
54812 | 0.40 uM |
Wt Probe | 0.15 uM |
Mutant Probe | 0.15 uM |
DNA |
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 |