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-miR166g-5p

Organism

Oryza sativa

Species

Mature miRNA Sequence(5'-3')

AAUGGAGGCUGAUCCAAGAUC

miRBase

Precursor miRNA Sequence(5'-3')

AGCAUGGUGUCUGGAAUGGAGGCUGAUCCAAGAUCAUUGCUUGGUGCAAAAUACUAGGGCAUUGUUGUAAGUGCCAUUAGUUCUUUUUUGUUUCCGAGUUUGUUAUCGAGGAUCUCGGACCAGGCUUCAUUCCUCACACCGUGCU

miRBase

Precursor miRNA Structure(5'-3') 

          CU         G   A   A     --------AUU      -U      ---U     -      GU 
AGCAUGGUGU  GGAAUGGAG CUG UCC AGAUC           GCUUGG  GCAAAA    ACUAG GGCAUU  U
||||||||||  ||||||||| ||| ||| |||||           ||||||  ||||||    ||||| ||||||   
UCGUGCCACA  CCUUACUUC GAC AGG UCUAG           UGAGCC  UGUUUU    UGAUU CCGUGA  A
          CU         G   C   C     GAGCUAUUGUU      UU      UUCU     A      AU

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

osa-miR166g-5p      ---AAUGGAGGCUGAUCCAAGAUC--
zma-miR166l-5p      --GAAUGGAGGCUGGUCCAAGA----
gma-miR5042-3p      -----UGGGGCUUGAUCCAAGAUAGG
gma-miR5042-5p      UAUCUUGGAUCACAGCCCCAUU----
                         ***        ** *