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-miR163

Organism

Arabidopsis thaliana

Species

Mature miRNA Sequence(5'-3')

UUGAAGAGGACUUGGAACUUCGAU

miRBase

Precursor miRNA Sequence(5'-3')

ACCCGGUGGAUAAAAUCGAGUUCCAACCUCUUCAACGACAACGAUUUCAACACUCUCUUCCAGGAACAACUUCCUCCAGGCAGAUGAUACUAAAGUGCUGGAGUUCCCGGUUCCUGAGAGUGAGUCCAUAUCAAAAUGCGCAUUCGUUAUCACUUGGUUGAACCCAUUUGGGGAUUUAAAUUUGGAGGUGAAAUGGAACGCGUAAUUGAUGACUCCUACGUGGAACCUCUUCUUAGGAAGAGCACGGUCGAAGAAGUAACUGCGCAGUGCUUAAAUCGUAGAUGCUAAAGUCGUUGAAGAGGACUUGGAACUUCGAUAUUAUCCCCCGUGU

miRBase

Precursor miRNA Structure(5'-3') 

  C   U      A     -       --             AACGAUUUCAACACUCUCUUCCAGGAACAACUUCCUCCAGGCAGAUGAUACUAAAGUGCUGGAGUUCCCGGUUCCUGAGAGUGAGUCCAUAUCAAAAUGCGCAUUCGUUAUCACUUGGUUGAAC 
AC CGG GGAUAA AUCGA GUUCCAA  CCUCUUCAACGAC                                                                                                                            C
|| ||| |||||| ||||| |||||||  |||||||||||||                                                                                                                             
UG GCC CCUAUU UAGCU CAAGGUU  GGAGAAGUUGCUG                                                                                                                            U
  U   C      A     U       CA             AAAUCGUAGAUGCUAAAUUCGUGACGCGUCAAUGAAGAAGCUGGCACGAGAAGGAUUCUUCUCCAAGGUGCAUCCUCAGUAGUUAAUGCGCAAGGUAAAGUGGAGGUUUAAAUUUAGGGGUUUA

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

ath-miR163           UUGAAGAGGACUUGGAACUUCGAU-
aly-miR163-3p.1      -UGAAGAGGACUUGGAACU-CGAUC
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