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

sly-miR10536

Organism

Solanum lycopersicum

Species

Mature miRNA Sequence(5'-3')

AGACAUGUUCUAAUCGUCAGCUUC

miRBase

Precursor miRNA Sequence(5'-3')

AAGGAAGCUGACGAUUAGAACAUGUCAAAGGAAUCGGUCCAAUGCAGCUGACUAACGUGCUUAUAUCAAGUGUUGUAAACUCGUUAGUUAACUUUGUUAGACAUGUUCUAAUCGUCAGCUUCCUUCU

miRBase

Precursor miRNA Structure(5'-3') 

--                          AAAGGAAUCGGUCCAAUGCAGCUGACUAACGUGCU 
  AAGGAAGCUGACGAUUAGAACAUGUC                                   U
  ||||||||||||||||||||||||||                                   A
  UUCCUUCGACUGCUAAUCUUGUACAG                                   U
UC                          AUUGUUUCAAUUGAUUGCUCAAAUGUUGUGAACUA

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

sly-miR10536        AGACAUGUUCUAAUCGUCAGCUUC
tae-miR9652-3p      AAGCUUAAUGAGAACAUGUG----
                    *  * *  *   * * *  *