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

ath-miR4228-5p

Organism

Arabidopsis thaliana

Species

Mature miRNA Sequence(5'-3')

AUAGCCUUGAACGCCGUCGUU

miRBase

Precursor miRNA Sequence(5'-3')

CGGCGUGUUGUUUUAACCUAAUAGCCUUGAACGCCGUCGUUUCGUCUCCGACGACAUUCACACGCGCACACUUCCACCCUUACCAUCUAUCCGUCUCACACGUGCGUCGGAUGCGAAACGGUGGUGUUCAGGGAUUUUUUAGGUUGCCGGAUUUUACC

miRBase

Precursor miRNA Structure(5'-3') 

---------     UGUUGUUUUA      --UAG                     C       A   -UCACAC   CACACUUCCAC 
         CGGCG          ACCUAA     CCUUGAACGCCGUCGUUUCGU UCCGACG CAU       GCG           C
         |||||          ||||||     ||||||||||||||||||||| ||||||| |||       |||           C
         GCCGU          UGGAUU     GGGACUUGUGGUGGCAAAGCG AGGCUGC GUG       UGC           A
CCAUUUUAG     ----------      UUUUA                     U       -   CACACUC   CUAUCUACCAU

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

aly-miR4228         AAAGCCUUGAACGCUGUCGUU
ath-miR4228-5p      AUAGCCUUGAACGCCGUCGUU
                    * ************ ******