Taqman qPCR protocols are run on a real time PCR instrument. Use an appropriate instrument specific Fluorophore/Quencher combination. The transgene genotype is determined by comparing ΔCt values of each unknown sample against known homozygous and hemizygous controls, using appropriate endogenous references.
>chr2:31096283-31096399 117bp TGAGTTTGCGACCATCTCTG GCCGGTTCATTACACAACAG
Mutant= 126 bp
Wild Type = 117 bp
Wt Sequence: tgagtttgcgaccatctctggCCtgagaataaacagaggcagaggctgcatttcacagagcacccgtggccgggtttgggttgtaattaattctgagctgttgtgtaatgaaccggc
Mutant Sequence: tgagtttgcgaccatctctggCCtgagagacacaaggactggggtgtggtggctcacacccgtgctcctagcactgggggtgttgggaggaggcagggcgaaaagttttctgcaaattcgatgacc
397 bp deletion beginning at Chromosome 2 negative strand position 31,096,377 bp, CTGAGAATAAACAGAGGCAG, and ending after CAAAGACAAGGATGTTCTAC at 31,095,981 bp (GRCm38/mm10).
Primer | 5' Label | Sequence 5' → 3' | 3' Label | Primer Type | Reaction | Note |
---|---|---|---|---|---|---|
35768 | TGA GTT TGC GAC CAT CTC TG | Common | A | |||
35769 | Fluorophore-1 | GCC GGT TCA TTA CAC AAC AG | Quencher-1 | Wild type Reverse | A | |
35770 | GGT CAT CGA ATT TGC AGA AAA C | Mutant Reverse | A | |||
35771 | Fluorophore-2 | CAG AGG CAG AGG CTG CAT | Quencher-2 | WT Probe | ||
35772 | Fluorophore-3 | TGG CTC ACA CCC GTG C | Quencher-3 | MUT Probe |
Component | Final Concentration |
---|---|
Kapa Probe Fast QPCR | 1.00 X |
ddH2O | |
35768 | 0.40 uM |
35769 | 0.40 uM |
35770 | 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 |