High throughput prediction and analysis of small interfering RNA from the 5′UTR and capsid genes of flavivirus through in silico strategies

Abstract: The genus flavivirus in the family Flaviviridae consists of many arthropod transmitted human pathogens. siRNA is a novel strategy used for controlling the gene expression of flavivirus. These are 20–25 nucleotide long dsRNA molecules that target genes at expression level. Nine flavivirus genomes were used to in silico identify the siRNA. Twenty three siRNAs were identified in the 5′ UTR and capsid protein encoding gene from flavivirus. These siRNA can be useful to knockdown the flavivirus and it might also be helpful for constructing live attenuated vaccine.