TarDB: A miRNA Target Database in Plants.


TarDB employs cross-species conservation filter, degradome and sRNA-seq data to identify high-confidence miRNA targets in plants.



miRNA ID

smo-miR1096

Organism

Selaginella moellendorffii

Species

Mature miRNA Sequence(5'-3')

CUGCCUCUUUGCUUCAGGAAU

miRBase

Precursor miRNA Sequence(5'-3')

UAUGGGGAAUUUCUGAAGCAAGGCGGCAGCAAGAAACCUCCAUGAGAGACUCUCAUGGAGGUAUUUUGCUGCCUCUUUGCUUCAGGAAUUCUCUCCAAA

miRBase

Precursor miRNA Structure(5'-3') 

--UAU                    C          A              
     GGGGAAUUUCUGAAGCAAGG GGCAGCAAGA ACCUCCAUGAGAG 
     |||||||||||||||||||| |||||||||| |||||||||||| A
     UCUCUUAAGGACUUCGUUUC CCGUCGUUUU UGGAGGUACUCUC 
AAACC                    U          A

Homologous Mature miRNAs   miRNAs are clustered by CD-HIT with sequence identity of >85% and word size of 5.

aly-miR3446-3p      UGCCACUCUUUUAGCUUCCGAAUC
smo-miR1096         ---CUGCCUCUUUGCUUCAGGAAU
                       *   ** ** ***** * *