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

ppe-miR171d-3p

Organism

Prunus persica

Species

Mature miRNA Sequence(5'-3')

CGAGCCGAAUCAAUAUCACUC

miRBase

Precursor miRNA Sequence(5'-3')

CAAGUAGACAUGGUGUGAUAUUGGUUCGGUUCAUAUCUUUUAUACUUUUUGGAUAUAUCCAUCCAUCCAUUCAUCCAUCCAUCCAUCCAUCACACUUCACGAAUCACAAACAAAGAUGACGAGCCGAAUCAAUAUCACUCUUGUAUGCUUG

miRBase

Precursor miRNA Structure(5'-3') 

      G   U  U                  -A       UAUACUUUUUGGAUAUAUCCAUCCAUCCAUUCAU 
CAAGUA ACA GG GUGAUAUUGGUUCGGUUC  UAUCUUU                                  C
|||||| ||| || ||||||||||||||||||  |||||||                                  C
GUUCGU UGU UC CACUAUAACUAAGCCGAG  GUAGAAA                                  C
      A   -  U                  CA       CAAACACUAAGCACUUCACACUACCUACCUACCU

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

ptc-miR171m         CGAGCCGAAUCAAUAUCACU-
ptc-miR171j         CGAGCCGAAUCAAUAUCACU-
ptc-miR171l-3p      CGAGCCGAAUCAAUAUCACU-
ppe-miR171d-3p      CGAGCCGAAUCAAUAUCACUC
gma-miR171r         CGAGCCGAAUCAAUACCACUC
gma-miR171s         CGAGCCGAAUCAAUACCACUC
                    *************** ****