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Updated: Jun 27, 2026

mirMachine: A One-Stop Shop for Plant miRNA Annotation
Published on: May 1, 2021
Structural profiles of human miRNA families from pairwise clustering
Bogumił Kaczkowski1, Elfar Torarinsson, Kristin Reiche
1Division of Genetics and Bioinformatics, IBHV, University of Copenhagen, Frederiksberg C, Denmark.
Unlabelled:
MicroRNAs (miRNAs) are a group of small, approximately 21 nt long, riboregulators inhibiting gene expression at a post-transcriptional level. Their most distinctive structural feature is the foldback hairpin of their precursor pre-miRNAs. Even though each pre-miRNA deposited in miRBase has its secondary structure already predicted, little is known about the patterns of structural conservation among pre-miRNAs. We address this issue by clustering the human pre-miRNA sequences based on pairwise, sequence and secondary structure alignment using FOLDALIGN, followed by global multiple alignment of obtained clusters by WAR. As a result, the common secondary structure was successfully determined for four FOLDALIGN clusters: the RF00027 structural family of the Rfam database and three clusters with previously undescribed consensus structures.
Availability:
http://genome.ku.dk/resources/mirclust
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