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Table 2 Primer and probe sequences used for detection of CYP2D6 gene mutations

From: Real time PCR detection of common CYP2D6 genetic variants and its application in a Karen population study

Analysis Primer and probe names Sequences (5′–3′) Length (bp) GC (%) Tm (°C) Amplicon size (bp)
XL-PCR [29] DPKup 5′-GTTATCCCAGAAGGCTTTGCAGGCTTCA-3′ 28 50.0 67.8 5100
DPKlow 5′-GCCGACTGAGCCCTGGGAGGTAGGTA-3′ 26 65.4 71.1
2D6dupl-F 5′-CCTGGGAAGGCCCCATGGAAG-3′ 21 66.7 65.5 3500
2D6dupl-R 5′-CAGTTACGGCAGTGGTCAGCT-3′ 21 57.1 63.2
5′2D6*5 5′-CACCAGGCACCTGTACTCCTC-3′ 21 61.9 62.7 3500
3′2D6*5 5′-CAGGCATGAGCTAAGGCACCCAGAC-3′ 25 60.0 67.9
Int2 5′2D6Int2 5′-TTTTGCACTGTGGGTCCTC-3′ 19 52.6 58.5 1101
3′2D6Int2 5′-CAAGGTGGACACGGAGAAG-3′ 19 57.9 58.4
Direct sequencing of PCR-reamplified products, DSP 5′2D6Ex1 5′-GCACAGTCAACACAGCAGGT-3′ 20 55.0 61.7 503
3′2D6Ex1 5′-AATGCCCTTCTCCAGGAAGT-3′ 20 50.0 59.2
5′2D6Ex2 5′-TTCCTCCATCACAGAAGGTG-3′ 20 50.0 57.4 501
3′2D6Ex2 5′-CTCCCTAGTGCAGGTGGTTT-3′ 20 55.0 59.9
5′2D6Ex34 5′-GTCTTCCCTGAGTGCAAAGG-3′ 20 55.0 59.1 754
3′2D6Ex34 5′-AGTGGGGTCTCCTGGAATG-3′ 19 57.9 58.9
5′2D6Ex56 5′-GAGGGACTTGGTGAGGTCAG-3′ 20 60.0 60.0 794
3′2D6Ex56 5′-GACACTCCTTCTTGCCTCCT-3′ 20 55.0 59.6
5′2D6Ex7 5′-ATGAACTTTGCTGGGACACC-3′ 20 50.0 59.0 505
3′2D6Ex7 5′-CCAGCCCTGCCTATACTCTG-3′ 20 60.0 59.9
5′2D6Ex89 5′-TCTAGTGGGGAGACAAACCAG-3′ 21 52.4 59.3 802
3′2D6Ex89 5′-CTGAGGAGGATGATCCCAAC-3′ 20 55.0 57.7
Allele-specific oligonucleotide probes real time SNPs genotyping, ASO
 C100T 5′2D6C100T 5′-CCTGGTGGACCTGATGCA-3′ 18 61.1 59.5 73
3′2D6C100T 5′-CCCGGGCAGTGGCA-3′ 14 78.6 58.7
2D6C100T_WT 5′-CCTGGTGGGTAGCGTG-3′ 16 69.0 51.1
2D6C100T_MT 5′-CCTGGTGAGTAGCGTG-3′ 16 63.0 48.5
 G1846A 5′2D6G1846A 5′-GACCCCTTACCCGCATCTC-3′ 19 63.2 60.1 73
3′2D6G1846A 5′-GCTCACGGCTTTGTCCAAGA-3′ 20 55.0 61.5
2D6G1846A_WT 5′-CCCCCAGGACGCC-3′ 13 85.0 48.0
2D6G1846A_MT 5′-CCCCCAAGACGCC-3′ 13 77.0 46.0
 C2850T 5′2D6C2850T 5′-CCTGAGAGCAGCTTCAATGATGA-3′ 23 47.8 61.3 67
3′2D6 C2850T 5′-CCATCCCGGCAGAGAACAG-3′ 19 63.2 60.7
2D6C2850T _WT 5′-ACTATGCGCAGGTTC -3′ 15 53.0 41.9
2D6C2850T _MT 5′-CACTATGCACAGGTTC-3′ 16 50.0 43.4
 G4180C 5′2D6G4180C 5′-CCACCATGGTGTCTTTGCTTTC-3′ 22 50.0 60.9 67
3′2D6G4180C 5′-GCACAGCACAAAGCTCATAGG-3′ 21 52.4 60.4
2D6G4180C _WT 5′-CTGGTGAGCCCATCC-3′ 15 67.0 47.4
2D6G4180C _MT 5′-CTGGTGACCCCATCC-3′ 15 67.0 47.4