In-silico identification of miRNA in Rice (Oryza sativa L.)
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Date
2020
Authors
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Journal ISSN
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Publisher
CCSHAU,HiSAR
Abstract
Rice (Oryza sativa L.) is the world’s single most important and essential crop and a primary
food source for half of the world’s populace. An aggregate of 49% calories consumed by the human
population come from rice. Micro RNAs (miRNA) are single-stranded non coding RNA molecules of
about 21-23 nucleotides in length which regulate gene expression. The main function of miRNAs is to
down-regulate the gene expression. The twelve chromosomes of Oryza sativa was downloaded from
the International Rice Genome Sequencing Project (IRGSP), after that they transcribed into RNA and
then they were cut into fragments by using split command. The output of split command was subjected
as input for palindrome finding in palindrome.pl script. Only four mismatches were allowed. The
secondary structures and MFE of output of palindrome.pl script were predicted using RNAfold
program. The sequences whose energy were less than -40kcal were sorted and identified as putative
miRNA. These putative miRNA were compared against miRNA database in miRBase. Total 61
miRNAs and their 255 putative targets were identified. These target genes have regulatory functions in
some certain biological processes.