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Table 1 Nucleotide PRIMER sequences and PCR conditions for genotyping by dHPLC or PCR-RFLP

From: Polymorphisms in regulatory regions of Cyclooxygenase-2 gene and breast cancer risk in Brazilians: a case-control study

PRIMER Name

Nucleotide sequence

Region

Identified SNP

Number of cycles

Melting Temperature

Enzyme#

-1290AG

F

5'

TGCTGTCATTTTCCTGTAATGC

3'

PR

rs689465

34

60°C

PciI

-1195AG

R

5'

TTTCTCTCCCTGATGCGTGG

3'

 

rs689466

  

AluI

AM1*

F

5'

GCTGTCAAAATCTCCCTTCC

3'

PR

rs20415

30

58°C

 
 

R

5'

CCACGCATCAGGGAGAGAAA

3'

     

AM2*

F

5'

AACCAAAATAATCCACGC

3'

PR

 

30

63°C

 
 

R

5'

CAAGGAGGGGGTGAAG

3'

     

-765GC

F

5'

CTTTGTCCATCAGAAGGCAGG

3'

PR

rs20417

35

63°C

AciI

 

R

5'

TAGAGGGTCGAGGAAGTCACG

3'

     

AM3*

F

5'

TTACCTTTCCCGCCTCTC

3'

PR

rs20419

30

58°C

 
 

R

5'

GCGTCGTCACTAAAACATAAAAC

3'

     

AM4*

F

5'

GCTATGTATGTATGTGCTGC

3'

PR

 

31

55°C

 
 

R

5'

GAACTGGCTCTCGGAAGC

3'

     

AM5*

F

5'

CGGTATCCCATCCAAGGC

3'

PR

rs5270

31

55°C

 
 

R

5'

CAGTGAGCGTCAGGAGCA

3'

 

rs20424

   

8473TC

F

5'

CTGTTGCGGAGAAAGGAGTC

3'

3'-UTR

rs5275

30

58°C

 
 

R

5'

TCAAACAAGCTTTTACAGGTGA

3'

     

9850AG**

F

5'

CGTTCCCATTCTAATTAATGCCCTT

3'

3'-UTR

rs4648298

34

50°C

AluI

 

R

5'

TGTGTCAAGCACTGTGGGTTTTAAT

3'

     

10335GA

F

5'

TTTGGGAAGAGGGAGAAAATGA

3'

3'-UTR

rs689469

30

56°C

 
 

R

5'

TATGCGAATGTTTCAGTGCC

3'

     
  1. * 15; ** 16; PR: Promoter Region; 3'-UTR: 3';Untranslated Region
  2. # Enzymes used for PCR-RFLP. All other analyses were performed by dHPLC.