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-miR172d-5p

Organism

Arabidopsis thaliana

Species

Mature miRNA Sequence(5'-3')

GCAACAUCUUCAAGAUUCAGA

miRBase

Precursor miRNA Sequence(5'-3')

AGUCAUUGUUUGCUAUUGCAACAUCUUCAAGAUUCAGAAAUCAGAUUCUCUUAUGGGUUUUCUUUUGAGCCUUUAUUUUUUGGUUUGAGAAUCUUGAUGAUGCUGCAGCGGCAAUUAAAUGGCU

miRBase

Precursor miRNA Structure(5'-3') 

       -GU     A     A    U         AG        UUCUCU  U      UC 
AGUCAUU   UUGCU UUGCA CAUC UCAAGAUUC  AAAUCAGA      UA GGGUUU  U
|||||||   ||||| ||||| |||| |||||||||  ||||||||      || ||||||   
UCGGUAA   AACGG GACGU GUAG AGUUCUAAG  UUUGGUUU      AU UCCGAG  U
       AUU     C     C    U         AG        ---UUU  U      UU

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

ath-miR172d-5p      GCAACAUCUUCAAGAUUCAGA
aly-miR172d-5p      GCAACAUCUUCAAGAUUCAGA
                    *********************