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-miR171c-5p

Organism

Solanum tuberosum

Species

Mature miRNA Sequence(5'-3')

UAUUGGCCUGGUUCACUCAGA

miRBase

Precursor miRNA Sequence(5'-3')

UAUUGGCCUGGUUCACUCAGACACACACUAUUUUGCUUUGAUUGAGCCGUGUCAAUAUC

miRBase

Precursor miRNA Structure(5'-3') 

--       C       C     -  CACA 
  UAUUGGC UGGUUCA UCAGA CA    C
  ||||||| ||||||| ||||| ||     
  AUAACUG GCCGAGU AGUUU GU    U
CU       U       U     C  UUUA

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

bra-miR170          UAUUGGCCUGGUUCACUCAGA
ath-miR170-5p       UAUUGGCCUGGUUCACUCAGA
ath-miR171a-5p      UAUUGGCCUGGUUCACUCAGA
aly-miR170-5p       UAUUGGCCUGGUUCACUCAGA
aly-miR171a-5p      UAUUGGCCUGGUUCACUCAGA
gma-miR171j-5p      UAUUGGCCUGGUUCACUCAGA
stu-miR171a-5p      UAUUGGCCUGGUUCACUCAGA
stu-miR171c-5p      UAUUGGCCUGGUUCACUCAGA
sly-miR171f         UAUUGGCCUGGUUCACUCAGA
csi-miR171f-5p      UAUUGGCCUGGUUCACUCAGA
zma-miR171a-5p      UAUUGGCGAGGUUCAAUCAGA
                    *******  ****** *****