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

zma-miR2275a-5p

Organism

Zea mays

Species

Mature miRNA Sequence(5'-3')

AGAGUUGGAGGAAAGCAAACC

miRBase

Precursor miRNA Sequence(5'-3')

GUCAGGCACUGAAAGUGAGAGUUGGAGGAAAGCAAACCGGCUGGGUAUCGGAUUCAGCAACGGAGGGUGCUGCCGGUCGGUUUGUUUUCCUCCAAUAUCUCACCUUCAGUCGAUAGUCUGAU

miRBase

Precursor miRNA Structure(5'-3') 

       -----      A      -                        GUAUCGGAUU     A G 
GUCAGGC     ACUGAA GUGAGA GUUGGAGGAAAGCAAACCGGCUGG          CAGCA C G
|||||||     |||||| |||||| ||||||||||||||||||||||||          ||||| |  
UAGUCUG     UGACUU CACUCU UAACCUCCUUUUGUUUGGCUGGCC          GUCGU G G
       AUAGC      C      A                        ----------     G G

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

zma-miR2275a-5p      AGAGUUGGAGGAAAGCAAACC--
zma-miR2275d-5p      AGAGUUGGAGGAAAGAAAACU--
osa-miR2275c         AGAAUUGGAGGAAAACAAACUGA
                     *** **********  ****