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Table 1 Description of the LNA probe and primer sequences used to quantify gene expression

From: Biomechanical signals and the C-type natriuretic peptide counteract catabolic activities induced by IL-1β in chondrocyte/agarose constructs

Gene Gene ID Sequences Product length Efficiency
iNOS 4843 Probe: 5'-FAM-ACTTCTTTCCCGTCTCC-BHQ1-3' 305 1.99
± 0.8
   Sense: 5'-TCCAGATAAGTGACATAAGTG-3'   
   Antisense: 5'-CAGCTTGACCAGAGATTC-3'   
COX-2 5743 Probe: 5'-AAACTGCTCAACACCG-BHQ1-3' 216 1.99
± 2.8
   Sense: 5'- GGACAGGATTCTATGGAG-3'   
   Antisense: 5'- GGATGTCAACACATAACTC-3'   
Aggrecan 176 Probe: 5-'FAM-CCAACTCTTCAAGGTGA-BHQ1-3' 109 1.98
± 0.4
   Sense: 5'-GACTGAAGTTCTTGGAGAA-3'   
   Antisense: 5'-CACGAAAACCCAGAGTAA-3'   
Collagen type II 1280 Probe: 5'-FAM-TCTGTCTCCTTGCTTGCCA-BHQ1-3' 200 1.99
± 0.9
   Sense: 5'-GGAGTCAAGGGTGATCGT-3'   
   Antisense: 5'-CTTGTGCACCAGCTTCTC-3'   
GAPDH 2597 Probe: 5'-HEX-CAGTCAGCCGCATCTTCT-BHQ1-3' 160 1.98
± 4.3
   Sense: 5'-TCTCTGCTCCTCCTGTTC-3'   
   Antisense: 5'-CGCCCAATACGACCAAAT-3'   
  1. Primers used in PCR experiments with Locked Nucleic Acid (LNA) probes produced amplicons between 109 and 305 base pairs and efficiency values between 1.98 and 1.99. Probes contain fluorescein (FAM) or 6-carboxyhexafluorescein (HEX) as the 5'-reporter dye and Black Hole Quencher 1 (BHQ1) as the 3'-quencher. Nucleotides highlighted in bold denote the LNA base.