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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