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Table 3 qPCR primer pairs used to quantitate endogenous transcripts in this study

From: Transcript copy number estimation using a mouse whole-genome oligonucleotide microarray

Gene symbol

Forward/reverse qPCR oligo sequence

Optimal concentration

Amplicon

Intron spanned?

   

Size

Tm

 

Ank

5'-AGTACCATAGTACACTCGGTTACCTGTCCTG-3'

900 nM

114 bp

78.8°C

Yes

 

5'-GCAAAGCTTTAAGTCGTAATCTAGCATCC-3'

50 nM

   

Axl/Ufo

5'-CGACTACCTGCGTCAAGGAAATCG-3'

300 nM

112 bp

82.8°C

Yes

 

5'-AAAACTTGGCCGGTCTCGAGG-3'

300 nM

   

Cd34

5'-TGCTCTGGAATCCGAGAAGTGAGG-3'

300 nM

140 bp

78.0°C

Yes

 

5'-TCAGCCTCAGCCTCCTCCTTTTC-3'

300 nM

   

Dnchc1

5'-AACTAAACCCAGCCATTCGGCC-3'

300 nM

98 bp

84.3°C

No

 

5'-TTGCGTTGGCGGGTGACAG-3'

900 nM

   

Gap43

5'-GAGAAGGGAAGGAGAGAAGGCAGG-3'

900 nM

131 bp

79.5°C

Yes

 

5'-TCCGGCTTGACACCATCTTGTTC-3'

900 nM

   

Gapd

5'-CGGAGTCAACGGATTTGGTCGTAT-3'

900 nM

214 bp

82.6°C

Yes

 

5'-GAAGATGGTGATGGGCTTCC-3'

300 nM

   

H19

5'-AGCTAACACTTCTCTGCTGCTCTCTGG-3'

300 nM

144 bp

81.4°C

Yes

 

5'-ATCTTCTTGATTCAGAACGAGACGGAC-3'

900 nM

   

Hand1

5'-GAGATGTATACCTGAGAGCAACAGGCATGATAGGTAG-3'

300 nM

113 bp

75.1°C

No

 

5'-CTTCTCCTTCATTTCTTTCCTTTTCCTTC-3'

900 nM

   

Hif1a

5'-GTCAGCAGTACATGGTAGCCACAATTG-3'

900 nM

139 bp

74.4°C

No

 

5'-GATCCAGGCTTAACAATTCCATAGGC-3'

300 nM

   

Hmga1

5'-AATTCAGGAGGATGAACATCTGACGC-3'

900 nM

114 bp

77.3°C

No

 

5'-TCTGTTCACAAACTACCTCTGGACGG-3'

50 nM

   

Hprt1

5'-AACAATGCAAACTTTGCTTTCCCTG-3'

300 nM

123 bp

80.1°C

Yes

 

5'-TCAAATCCAACAAAGTCTGGCCTG-3'

300 nM

   

Igf2bp3

5'-AAGTATACATTCTCACAGAGACAGGATCGAGTGACTG-3'

900 nM

126 bp

81.5°C

No

 

5'-AAAGACAGATTTGCTTAACCAACAGACG-3'

900 nM

   

Lpl

5'-TTTCCAGCCAGGATGCAACATTG-3'

300 nM

105 bp

82.3°C

No

 

5'-TGAATGGAGCGCTCATGCGAG-3'

900 nM

   

Myo1b

5'-AATACACACCTTGTACCAATCAGCTCTCTC-3'

900 nM

143 bp

76.1°C

No

 

5'-TGATAAGAAGAGGCTGAGAGCCGTTC-3'

900 nM

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