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Table 3 RT-qPCR assay information

From: Reference gene alternatives to Gapdh in rodent and human heart failure gene expression studies

Gene Symbol

Genbank ID

Assay information

Primer location on Refseq

Amplicon (bp)

Target exons

E

Mouse genes

Rplp0 (Arbp)

NM_007475

AB ID Mm00725448_s1

 

124

7

0.86

Rpl32

NM_172086

F: CAC CAG TCA GAC CGA TAT GTG AAA A

118-142

64

2-3

0.92

  

R: TGT TGT CAA TGC CTC TGG GTT T

160-181

   
  

P: CCG CCA GTT TCG CTT AA

143-159

   

Rpl4

NM_024212

F: GGT GGT TGA AGA TAA GGT TGA AGG T

500-524

71

5

0.88

  

R: CTT TGA GTT TCT TGA GCA GCT GAA

547-570

   
  

P: CAG CCT CCT TGG TCT TC

530-546

   

Tbp

NM_013684

AB ID Mm00446973_m1

 

73

4-5

0.78

Polr2a

NM_009089

F: CTT TGA GGA AAC GGT GGA TGT C

4293-4314

67

26

0.94

  

R: TCC CTT CAT CGG GTC ACT CT

4340-4359

   
  

P: ATG TGC TGC TGC TTC C

4320-4335

   

Hprt1

NM_013556

AB ID Mm00446968_m1

 

65

6-7

0.84

Gapdh

NM_008084

AB ID Mm99999915_g1

 

107

2-3

0.79

Pgk1

NM_008828

AB ID Mm00435617_m1

 

137

5-6

0.77

Ppia

NM_008907

F: GCA CTG CCA AGA CTG AAT GG

385-404

63

4-5

0.81

  

R: TGC CTT CTT TCA CCT TCC CAA A

426-447

   
  

P: CTG GAT GGC AAG CAT G

405-420

   

Atp2a2

NM_009722

AB ID Mm00437634_m1

 

59

20-21

0.87

Pln

NM_023129

AB ID Mm00452263_m1

 

71

1-2

0.83

Slc8a1 (Ncx1)

NM_011406

AB ID Mm00441524_m1

 

72

10-11

0.78

Nppa

NM_008725

F: GTA CAG TGC GGT GTC CAA CA

170-189

 

1-2

0.80

  

R: CTC ATC TTC TAC CGG CAT CTT CTC

231-254

   
  

P: AAG AAC CTG CTA GAC CAC C

207-225

   

Rat genes

Arbp (Rplp0)

NM_022402

AB ID Rn00821065_g1

 

97

1-2

0.90

Rpl32

NM_013226

AB ID Rn00820748_g1

 

72

1

0.80

Rpl4

NM_022510

AB ID Rn00821091_g1

 

82

5-6

0.84

Tbp

NM_001004198

F: CCT CTG AGA GCT CTG GGA TTG TA

666-688

62

3-4

1.10

  

R: GCC AAG ATT CAC GGT GGA TAC A

706-727

   
  

P: CCA CAG CTC CAA AAT A

689-704

   

Polr2a

XM_343922

F: CGT ATC CGC ATC ATG AAC AGT GA

4181-4203

71

22-24

0.92

  

R: TCA TCC ATC TTA TCC ACC ACC TCT T

4227-4251

   
  

P: CCT CCT CCT GCA TCT TG

4210-4226

   

Hprt1

NM_012583

AB ID Rn01527838_g1

 

100

4-5

0.86

5-HTT (Slc6a4)

NM_013034

F: GTC ATC TGC ATC CCT ACC TAT ATC ATT

1863-1889

98

15-16

0.76

  

R: GTG GGT GTT TCA GGA GTG ATA CTT T

1936-1960

   
  

P: AAT AAT CCG CTC CTT AAG TGT CCC CGG AGT

1905-1934

   

Gapdh

NM_017008

AB ID Rn99999916_s1

 

87

3

0.93

Atp2a2

NM_017290

AB ID Rn00568762_m1

 

83

3-4

0.91

Pln

NM_022707

AB ID Rn01434045_m1

 

59

1-2

0,87

Slc8a1 (Ncx1)

NM_019268

AB ID Rn00570527_m1

 

115

5-6

0,88

Nppa

NM_012612

AB ID Rn00561661_m1

 

58

2-3

0.96

Human genes

Rplp0 (Arbp)

NM_001002

AB ID Hs99999902_m1

 

105

3

0.85

Rpl32

NM_000994

F: CAC CAG TCA GAC CGA TAT GTC AAA A

161-185

64

2-3

0.93

  

R: TGT TGT CAA TGC CTC TGG GTT T

203-224

   
  

P: CCG CCA GTT ACG CTT AA

186-202

   

Rpl4

NM_000968

F: CAG CAC TGG TCA TGT CTA AAG GT

457-479

81

4-5

0.93

  

R: AGC CTT CAA CTT TAT CTT CAA CTA CCA AA

537-509

   
  

P: CAT CGT ATT GAG GAA GTT C

480-498

   

Tbp

NM_003194

AB ID Hs00427620_m1

 

91

3-4

0.97

Polr2a

NM_000937

AB ID Hs00172187_m1

 

61

1-2

0.87

Hprt1

NM_000194

AB ID Hs00355752_m1

 

N/A

N/A

0.74

Gapdh

NM_002046

AB ID Hs99999905_m1

 

122

3

0.98

Pgk1

NM_000291

AB ID Hs99999906_m1

 

75

4-5

0.74

Ppia

NM_021130

AB ID Hs99999904_m1

 

98

4

0.75

Atp2a2

NM_001681

AB ID Hs00544877_m1

 

123

5-6

0.90

Pln

NM_002667

AB ID Hs00160179_m1

 

98

1-2

0.69

Slc8a1 (Ncx1)

NM_021097

AB ID Hs00253432_m1

 

58

2-3

0.83

Nppa

NM_006172

AB ID Hs00383230_g1

 

105

1-2

0.81

18S

X03205

Eukaryotic 18S endogenous control, part number 4319413E

 

187

N/A

1.06

  1. All DNA sequences are in 5'-3' direction. F, forward primer; R, reverse primer, P, probe.
  2. E, assay amplification efficiency; AB ID, Applied Biosystems hydrolysis probe (Taqman) Gene Expression Assay ID; Part number (Applied Biosystems). N/A, not available.