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

fve-miR171c-5p

Organism

Fragaria vesca

Species

Mature miRNA Sequence(5'-3')

AGAUAUUGGUGCGGUUCAAUC

miRBase

Precursor miRNA Sequence(5'-3')

GCUGCUUUAACAUGAGAUAUUGGUGCGGUUCAAUCAGAAACCAGCUCUUUGCUCUUAAAGUUCUGUUAUUUGAUUGAGCCGUGCCAAUAUCACAUAUACAGC

miRBase

Precursor miRNA Structure(5'-3') 

    CU UAAC   A                       AAC   CU     C 
GCUG  U    AUG GAUAUUGGUGCGGUUCAAUCAGA   CAG  CUUUG U
||||  |    ||| |||||||||||||||||||||||   |||  |||||  
CGAC  A    UAC CUAUAACCGUGCCGAGUUAGUUU   GUC  GAAAU U
    AU ----   A                       AUU   UU     U

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

ath-miR171b-5p      AGAUAUUAGUGCGGUUCAAUC
aly-miR171b-5p      AGAUAUUAGUGCGGUUCAAUC
ath-miR171c-5p      AGAUAUUGGUGCGGUUCAAUC
gma-miR171c-5p      AGAUAUUGGUGCGGUUCAAUC
stu-miR171d-5p      AGAUAUUGGUGCGGUUCAAUU
fve-miR171c-5p      AGAUAUUGGUGCGGUUCAAUC
aly-miR171c-5p      AGAUAUUGGUGCGGUUCAAUC
gma-miR171o-5p      AGAUAUUGGUACGGUUCAAUC
lus-miR171d         AGAUAUUGGUGCGGUUCAAUC
osa-miR171c-5p      GGAUAUUGGUGCGGUUCAAUC
bdi-miR171c-5p      CGGUAUUGGUGCGGUUCAAUC
                     * **** ** *********