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

osa-miR1875

Organism

Oryza sativa

Species

Mature miRNA Sequence(5'-3')

ACAAUGGAGUGAAGUGCAACAGAA

miRBase

Precursor miRNA Sequence(5'-3')

GCUGUCCAUUUUCAUUGCACUUUGCUCCAUUGUGGUAUUGACAUUCUGCAAGAACGAGUCCCAGUAUCAAGUCACUGUUACGGUGUUGUUGGUACCAUUGAUUAACAUAACACUUGACGGCCAUACUUGGUCAUGUUGUAUGUUAUCAGCUUCACAGAGGUACAUGUGGCACUUUAACAGUUAUUUGAUACAGUGACUAGGCUGCAGUUGAGCGAAACCACAAUGGAGUGAAGUGCAACAGAAAUGAACAUU

miRBase

Precursor miRNA Structure(5'-3') 

GC   C      CA                      A   ACAUU     A AACG    C A         C       C       UUG     A   --AUUAAC      CU    --     U 
  UGU CAUUUU  UUGCACUUUGCUCCAUUGUGGU UUG     CUGCA G    AGUC C GUAUCAAGU ACUGUUA GGUGUUG   GUACC UUG        AUAACA  UGAC  GGCCA A
  ||| ||||||  |||||||||||||||||||||| |||     ||||| |    |||| | ||||||||| ||||||| |||||||   ||||| |||        ||||||  ||||  |||||  
  ACA GUAAAG  AACGUGAAGUGAGGUAACACCA AGC     GACGU C    UCAG G CAUAGUUUA UGACAAU UCACGGU   CAUGG GAC        UAUUGU  GUUG  CUGGU U
UU   A      AC                      A   GAGUU     - -GGA    U A         U       U       GUA     A   ACUUCGAC      AU    UA     U

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

osa-miR1875         ACAAUGGAGUGAAGUGCAACAGAA--
ppt-miR2083-5p      -----UUCUUGCACUCCUCCAUCUCU
                             ** * * *  **