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Table 3 PCR primers for amplification; all primers are designed for the sense strand.

From: A cluster of genes located in 1p36 are down-regulated in neuroblastomas with poor prognosis, but not due to CpG island methylation

Gene

Primer

Sequence

Length of fragment (bp)

Accession number

UBE4B

FP

5'-TTGTTAGTTTATTTGGTTTAGGTT-3'

466

NM_006048

 

RP

5'-TAACAAAACCCAACACTATAAAAAAAACCCCT-3'

  

KIF

FP

5'-TTTTTAAGGGTATTTTTTAGAAGGG-3'

644

NM_015074

 

RP

5'-ACTATAACCAATCACAACACAAAACTC-3'

  

PGD

FP-A

5'-GTGAGTTGTTATGGTTATAGTTG-3'

301

NM_002631

 

FP-B

5'-ATGGTGTGGTTTTATGGTTTTATTT-3'

  
 

RP

5'-CAAAATCACAAAACCCCAAATAA-3'

  

APITD1

1FP-A

5'-GATTTTGTAAGATATATTTGAGGTAT-3'

231

chr1_29_927.b

 

1FP-B

5'-ATGGAGTTTTTGATAATGTGTATTG-3'

  
 

1RP

5'-AACCCCCTACTCAACTTACTCTAC-3'

  
 

2FP-A

5'-ATTAGGTTTTGGGGTGTAGTAGTGAT-3'

199

 
 

2FP-B

5'-GTAGAGTAAGTTGAGTAGGGGGTTG-3'

  
 

2RP

5'-ACCCTAAACAAAAACAAAAAAAC-3'

  
 

3FP-A

5'-GTAGAGTAAGTTGAGTAGGGGGTTG-3'

350

 
 

3FP-B

5'-TTGTTTTTGTTTAGGGTCGGTT-3'

  
 

3RP

5'-CAAAACCAAAAAATAACCTCTC-3'

  

DFFA

FP

5'-AAGTTAAAAATAATTTTTAGGTTGAAT-3'

407

NM_004401

 

RP

5'-ACCAACCCTTACTCCTCAAATCT-3'

  

PEX14

FP

5'-TGATTAGTTAGGTTTTAGAAAGATGG-3'

333

NM_004565

 

RP

5'-CAAATAAAACCAAAAATACTAACAAAC-3'

  
  1. Column 2: FP, forward primer; RP, reverse primer; FP-A and FP-B, primers used for semi-nested PCR together with the same reverse primer. Column 5: UCSC Genome Browser August 2001 draft sequence was used as reference sequence (URL: http://genome.ucsc.edu).