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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.