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Table 1 Primer sequences and amplicon characteristics

From: Selection of reference genes for quantitative real-time PCR in a rat asphyxial cardiac arrest model

Gene

Sequence

Reference a

Position cDNA b

Position gene

Amplicon length (bp)

Product TMe, f (°C)

PCR efficiencyf (%)

Gapdh

5'-CAACTCCCTCAAGATTGTCAGCAA-3'

NM_017008

493–516

Int. span.

118

82.9

105

 

5-'GGCATGGACTGTGGTCATGA-3'

NC_005103

610-591

    

Actb c

5'-AAGTCCCTCACCCTCCCAAAAG-3'

V01217

3474–3495

Exon

97

82.9

92.5

 

5'-AAGCAATGCTGTCACCTTCCC-3'

V01217

3570-3550

    

CypA c

5'-TATCTGCACTGCCAAGACTGAGTG-3'

M19533

381–404

Int. span.

126

82.0

98

 

5'-CTTCTTGCTGGTCTTGCCATTCC-3'

NW_047430

507-485

    

B2m

5'-CGAGACCGATGTATATGCTTGC-3'

NM_012512

286–307

Int. span.

114

79.8

92

 

5'-GTCCAGATGATTCAGAGCTCCA-3'

NC_005102

399-378

    

Rpl13a

5'-GGATCCCTCCACCCTATGACA-3'

NM_173340

334–354

Int. span.

132

83.5

100

 

5'-CTGGTACTTCCACCCGACCTC-3'

NC_005100

464-444

    

Hprt c

5'-CTCATGGACTGATTATGGACAGGAC-3'

NM_012583

179–203

Int. span.

123

80.9

97

 

5'-GCAGGTCAGCAAAGAACTTATAGCC-3'

NW_048050

301-277

    

Ywhaz

5'-GATGAAGCCATTGCTGAACTTG-3'

NM_013011

955–976

Int. span.

117

77.6

95

 

5'-GTCTCCTTGGGTATCCGATGTC-3'

NC_005106

1071-1050

    

Sdha

5'-TCCTTCCCACTGTGCATTACAA-3'

NM_130428

1222–1243

Int. span.

105

81.4

98

 

5'-CGTACAGACCAGGCACAATCTG-3'

NC_005100

1326-1305

    

Pgk1

5'-ATGCAAAGACTGGCCAAGCTAC-3'

NM_053291

969–990

Int. span.

104

81.9

99

 

5'-AGCCACAGCCTCAGCATATTTC-3'

NC_005120

1072-1051

    

Tbp

5'-TGGGATTGTACCACAGCTCCA-3'

NM_001004198

679–699

Int. span.

131

78.2

100

 

5'-CTCATGATGACTGCAGCAAACC-3'

NC_005100

810-789

    

Mac-1 d

5'-CTGCCTCAGGGATCCGTAAAG-3'

NM_012711

680–700

Int. span.

150

79.8

101

 

5'-CCTCTGCCTCAGGAATGACATC-3'

NW_047562

829-808

    
  1. a Genebank accession number of cDNA (upper line) and genomic sequences or contigs (lower line), b Position of amplification product within cDNA sequence (genomic sequence for Actb), Exon; both primers bind to the same exon, Int. span.; primers bind on different exons, c Primer sequences according to [46], d Primer sequences according to [47], e melting temperature of specific PCR product, f calculated by MxPro Mx3005P v3.00 software (Stratagene, La Jolla, CA)