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

stu-miR162b-5p

Organism

Solanum tuberosum

Species

Mature miRNA Sequence(5'-3')

GGAGGCAGCGGUUCAUCGAUC

miRBase

Precursor miRNA Sequence(5'-3')

GGAGGCAGCGGUUCAUCGAUCUGUUCCCUGAAAGCUGAAUAUAUAUGCAAAAAUACAGCAAAAGGAACCGAUCGAUAAACCUCUGCAUCCAG

miRBase

Precursor miRNA Structure(5'-3') 

--   G    C    C       U     CUGAAA    AAUAUAUA 
  GGA GCAG GGUU AUCGAUC GUUCC      GCUG        U
  ||| |||| |||| ||||||| |||||      ||||         
  CCU CGUC CCAA UAGCUAG CAAGG      CGAC        A
GA   A    U    A       C     --AAAA    AUAAAAAC

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

ath-miR162a-5p      UGGAGGCAGCGGUUCAUCGAUC
ath-miR162b-5p      UGGAGGCAGCGGUUCAUCGAUC
csi-miR162-5p       UGGAGGCAGCGGUUCAUCGAUC
aly-miR162a-5p      -GGAGGCAGCGGUUCAUCGAUC
aly-miR162b-5p      -GGAGGCAGCGGUUCAUCGAUC
stu-miR162a-5p      -GGAGGCAGCGGUUCAUCGAUC
fve-miR162-5p       -GGAGGCAGCGGUUCAUCGAUC
stu-miR162b-5p      -GGAGGCAGCGGUUCAUCGAUC
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