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

aly-miR852-5p

Organism

Arabidopsis lyrata

Species

Mature miRNA Sequence(5'-3')

AGAACAAAGGCGCUUAUCUUAU

miRBase

Precursor miRNA Sequence(5'-3')

GCUCAAAGCUCAGAACAAAGGCGCUUAUCUUAUGGAUAUAUCAAAGAAGAUAAGCGCCUUAGUUCUGAAGAUAAGC

miRBase

Precursor miRNA Structure(5'-3') 

GCUCAAAGC       A              -AUG  U 
         UCAGAAC AAGGCGCUUAUCUU    GA A
         ||||||| ||||||||||||||    ||  
         AGUCUUG UUCCGCGAAUAGAA    CU U
-CGAAUAGA       A              GAAA  A

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

ath-miR852         AAGAUAAGCGCCUUAGUUCUG-
aly-miR852-3p      AAGAUAAGCGCCUUAGUUCUGA
aly-miR852-5p      AGAACAAAGGCGCUUAUCUUAU
                   *  * **  **  *  *  *