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. 2006 Nov 7;73(3):219–227. doi: 10.1016/j.antiviral.2006.10.008

Table 1.

Design of siRNA for knockdown of specific SARS coronavirus subgenomic mRNA in infected cells

mRNA Sequencea Matching nt for siRNA 2b Matching nt for siRNA 3c Matching nt for siRNA 7d
1 GTAGATCTGTTCTCTAAACGAACTTTAAAATCTGT 15/21 16/21 17/19
2 GTAGATCTGTTCTCTAAACGAACATGTTTATTTTC 21/21 17/21 16/19
3 GTAGATCTGTTCTCTAAACGAACTTATGGATTTGT 17/21 21/21 14/19
4 GTAGATCTGTTCTCTAAACGAACTTATGTACTCAT 17/21 18/21 14/19
5 GTAGATCTGTTCTCTAAACGAACTAACTATTATTA 14/21 15/21 14/19
6 GTAGATCTGTTCTCTAAACGAACGCTTTCTTATTA 15/21 15/21 13/19
7 GTAGATCTGTTCTCTAAACGAACATGAAAAAATTA 16/21 14/21 19/19
8 GTAGATCTGTTCTCTAAACGAACATGAACTTCTCA 16/21 14/21 18/19
9 GTAGATCTGTTCTCTAAACGAACAAATTAAAATGT 16/21 15/21 15/19
a

These sequences represent the leader-containing subgenomic mRNAs found in SARS coronavirus infected cells (Yount et al., 2003). The highly conserved consensus sequences (CS), which are highlighted in bold, form the junction between the leader RNA sequences and the body sequences that encode the different open reading frames. The underlined sequences for mRNA 2, 3 and 7 represented the insert sequences for the siRNA used in this study.

b

This represents the number of matching nucleotide (nt) between the subgenomic mRNA sequences and the sequences targeted by the siRNAs (2) used in this study over the total number of nucleotide targeted by the respective siRNAs. Perfect matches are highlighted in bold.

c

This represents the number of matching nucleotide (nt) between the subgenomic mRNA sequences and the sequences targeted by the siRNAs (3) used in this study over the total number of nucleotide targeted by the respective siRNAs. Perfect matches are highlighted in bold.

d

This represents the number of matching nucleotide (nt) between the subgenomic mRNA sequences and the sequences targeted by the siRNAs (7) used in this study over the total number of nucleotide targeted by the respective siRNAs. Perfect matches are highlighted in bold.