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Table 3 Sequences of primers and PCR conditions used to screen BER genes.

From: Evaluation of NTHL1, NEIL1, NEIL2, MPG, TDG, UNG and SMUG1genes in familial colorectal cancer predisposition

  

Primer sequence (5' > 3')

  

Gene

Fragment

Forward

Reverse

Amplicon (bp)

PCR Conditions*

NTHL1

1

GTAGTTCTGTGCCGCCCTCT

CAGCCTGCAGCCCCTATC

270

68–60 TD, 1.7M B

 

2A

ATGAACGAGTGAGGGGTGAG

AGCTGTTGCTGCCAGTCC

244

68–60 TD, 1.7M B

 

2B

AGAGACTGCGTGTGGCCTAT

GAGGGTGCCAGCCAAAAG

284

68–60 TD, 1M B

 

3

CAGGGAATCACCCAGGAC

AGGTCTCTCTCAGGCCACTG

279

68–60 TD, 1M B

 

4

GCTGCATCCTCCCAGGTT

CACAGGTCACAAGGATGTGG

298

68–60 TD

 

5

GGCTAGGCTGGTGGAGTGT

GGGTCAGTGCTGACAGAGG

225

68–60 TD

 

6

GGCTTCCTAGGGAGAAGAGC

GTGGCTTCCTGAAGCGTAAA

266

68–60 TD

NEIL1

1A

CAGCCGCTACCTCACAAAGT

GCTGAAGCTGAGATGCGGTA

232

68–60 TD

 

1B

CAGCCAGTTTGTGAATGAGG

CCGTGTAAAAGCGCAGGT

281

68–60 TD

 

1C

CCACTGGCCCTGGTCTTC

TTGGCCAAGAAGGCACTAAG

295

68–60 TD, 1M B

 

2

AGGTTCTCTGAGCCCCTCTC

GCTAGGCAGTGGGGAATGT

263

68–60 TD

 

3

GTGCCCACATTCCCCACT

CTAAGCTGGGGACACCTGAC

208

68–60 TD

 

4

CCCAAAGTCTGACCAAGCTC

CCCCAGGGTTACACAATCAT

245

68–60 TD

 

5

GAGCCTGCCCTCTGATCTCT

GGGGTCTCTGCCTGTGTG

203

68–60 TD

 

6

CACTGATCTGGATGGGTGTG

ATAGGGTGGAGAAGGGTGCT

210

60–50 TD, 1M B

 

7

AGCACCCTTCTCCACCCTAT

CCGCCCTCTTAGGGTAAGG

238

68–60 TD

 

8

CCAACCTCTGAACTGCTTTCT

TAGAGCCAGTTTCTGGGAGTG

257

68–60 TD

 

9

CGTGTACAAAGGTGGGAGAAA

AATTCAGACCCCCAGATGC

216

68–60 TD

NEIL2

1

TGCTTGGCACCTGTTAAAGA

CCCTGAGACATATGGGGATAGA

296

68–60 TD, 1M B

 

2A

AATATCCGCATTCCCCAGTT

GGGCGTCTCTCTCCAAATAC

296

68–60 TD, 1M B

 

2B

GGGCAGAAGACCCTTGATG

TGACTATCAGAGCCCACGAA

254

68–60 TD, 1M B

 

3

CAGCCACAGGGTGTGCTCT

TCTGTGGACTCACCCCTTTC

299

68–60 TD, 1M B

 

4A

GCCATGTGTCCTTTGTCCTT

GCCTCTGTAACCCATCTTCG

290

68–60 TD, 1M B

 

4B

CGCAGCACACACAGGTCTAC

CCACATCCTCCTTTCTGGAC

237

68–60 TD, 1M B

MPG

1

GGTCCTAGGGGTGCTTCC

TGGCCTATGCTCTGGCTCT

254

68–60 TD, 1.7M B

 

2A

GCTGTCTCCTATTCGGATGC

CCCTTTGGGCTTGAGAAATA

248

68–60 TD, 1.7M B

 

2B

CACACAGCTCGTCCGATG

CAGTGACAGGCACTTCAGGA

229

68–60 TD, 1M B

 

3A

TGGGCACTGTTAGGGTGAGT

ACCCTGGCTGGAGATGTTC

273

68–60 TD, 1M B

 

3B

CTAGTCCGGCGACTTCCTAA

CCCCACCTCAGTCCTCCTA

291

68–60 TD, 1M B

 

4A

GCAGAGAGGACAGGAGCCTA

CCAGCCATACAGCTTCATCC

267

68–60 TD, 1M B

 

4B

GAGACCATGCGTCAGCTTC

ACATAGAAGCGGAGGGGTTT

266

68–60 TD, 1M B

 

4C

GATGAAGCTGTATGGCTGGAG

GCTCTGGCTAAGGCACAGTT

270

68–60 TD, 1M B

TDG

1

TCTCTGGGGTTGTCTTACCG

AGCCTGCCCAGCAGTGAG

180

68–60 TD, 1M B

 

2

TGATCATTTGGATTTACATTTGG

GGCTGATCCGATGTTGAACT

252

68–60 TD, 1M B

 

3A

TTTTCTGGGAAAGCTGCTAAA

GGGGAGAGTCTTGGTCAGAA

279

60–50 TD

 

3B

CTGGCAAGTCTGCAAAATCA

GGTCCTTTTCAGCAAAATGC

252

60–50 TD

 

4

GATGAAATGTCTAATTGTTTTGTTTT

CACACAGAACATGAAACACGA

233

60–50 TD

 

5

GGCTGCACTGAGCCATGAT

GGTTCCAACCCATAAAAGCA

271

68–50 TD

 

6

TCAAGCTGAGCTCAACAAATG

CAAACATATTTACATTGCCCATAA

262

68–60 TD

 

7

TCAGCCACGAATAGCAGTGT

TCACAATGGATAGGACAAATAAGG

288

68–60 TD

 

8A

CAAGTTATTAACCCAAATAAAGACAAA

TGAATAAAAGGAATGAGGACAGTAA

300

60–50 TD, 1M B

 

8B

CATCCAGTGCAAGATGTGCT

CACAAAATGAATAAAAGGAATGAGG

190

68–60 TD, 1M B

 

9

CAAGAAAAAGAATTGTTCATGATTTC

CCTGACCAAACCGTCTTTGA

267

68–60 TD

 

10

GGCGATAGAGTAAGACCCAGTC

GGTTCTACTTGTTGACAACTGCAT

298

68–60 TD

UNG

1

AATTGCTGACCGCCACAG

CCTTCCTCCCCCTTCACC

262

68–60 TD, 1M B

 

2A

GGGCTCTTACTGTCCGCTTT

CTCTGGATCCGGTCCAACT

240

68–60 TD, 1M B

 

2B

GACCACTTGCAGGCCATC

GGCCGGCTACACTAACAAGA

296

68–60 TD, 1M B

 

3

TTGAATTCTTATGGTTTCCAATGA

TGTGGCTTAACTCCAGTGTCC

240

68–60 TD, 1M B

 

4

CAGGGTCTGTGCTGCTTACA

AACAGTGCCCCAGATAGTCC

251

68–60 TD, 1M B

 

5A

CAAGGGCTGGCTGTAACTTC

TAGCAGTCGCTGGCTTACCT

218

68–60 TD, 1M B

 

5B

GGCTTGCTTTCAGTTTGGAG

CAGCTATGGTGGCTCATGC

288

68–60 TD, 1M B

 

6

TGCCTGAGCCTACATTTAACC

GCAGGGACTCCTAGAATTCTTTA

299

60–50 TD, 1M B

 

7

CCACTGCAGCAAGACTCTGT

GGAACTTCGTAACTGGCAAA

 

60–50 TD

SMUG1

1A

CTCTGTGGCTGAGGGTTGAT

TTGTAGATGATGCCCACAGG

233

68–50 TD, 1M B

 

1B

AGAGCTTCCTGGAGGAGGAG

AGCCAAGCATCCACCTAGAA

258

68–60 TD, 1M B

 

2A

TCTCCAGTTTGAAGCCTTTCAT

CTCAGCAGGAGTAAGGTTGC

300

68–60 TD, 1M B

 

2B

CCACAATCTATGCCCTCTGC

TCAATCTTTCCTTGGCCACT

296

68–60 TD, 1M B

 

2C

TCTTGGGATCTGTGATGCAG

TTCGAGGTCTTGAATGTGTCC

286

68–60 TD, 1M B

  1. * TD, Touchdown °C; B, Betaine