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

csi-miR171f-5p

Organism

Citrus sinensis

Species

Mature miRNA Sequence(5'-3')

UAUUGGCCUGGUUCACUCAGA

miRBase

Precursor miRNA Sequence(5'-3')

GUGUGUAUAUAUAUGAAAGGGUAGCCGUGAUAUUGGCCUGGUUCACUCAGACAAACCGGUUUAUUUGCUUUUAUUAGAGCAAAGUUCCAGGUUUUUUUGUUUUGGUUUGAUUGAGCCGUGCCAAUAUCUCGUUUCUCUUUCAUUUUUCCAAGACUCAC

miRBase

Precursor miRNA Structure(5'-3') 

   U  ---AUAUAU         U   C U         C       C      ----------     -  UUUA        U 
GUG GU         AUGAAAGGG AGC G GAUAUUGGC UGGUUCA UCAGAC          AAACC GG    UUUGCUUU A
||| ||         ||||||||| ||| | ||||||||| ||||||| ||||||          ||||| ||    ||||||||  
CAC CA         UACUUUCUC UUG C CUAUAACCG GCCGAGU AGUUUG          UUUGG CC    AAACGAGA A
   U  GAACCUUUU         U   - U         U       U      GUUUUGUUUU     A  -UUG        U

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
                    *******  ****** *****