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-miR3627a

Organism

Fragaria vesca

Species

Mature miRNA Sequence(5'-3')

UCGCAGGAGAGAUGGCACUACC

miRBase

Precursor miRNA Sequence(5'-3')

AAGAGGUUGGAAUCCUGUCGCAGGAGAGAUGGCACUACCUAGCUUUACGCAUACGUACCGAGAUAUAUACGUACGUGGUAAAUAUAUAUAGAUGAGCUAUUGAUGGUGUAGCAGCUAGCUUGUGCCAUCCUCCUGUGACAGUAAUCCCUGCAACUUCUU

miRBase

Precursor miRNA Structure(5'-3') 

        ----   AUC            A        UAC      -      AUACGUACCGAGAUAUAUACGUACGU 
AAGAGGUU    GGA   CUGUCGCAGGAG GAUGGCAC   CUAGCU UUACGC                          G
||||||||    |||   |||||||||||| ||||||||   |||||| ||||||                          G
UUCUUCAA    CCU   GACAGUGUCCUC CUACCGUG   GAUCGA GAUGUG                          A
        CGUC   AAU            -        UUC      C      GUAGUUAUCGAGUAGAUAUAUAUAAA

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

fve-miR3627a        UCGCAGGAGAGAUGGCACUACC
fve-miR3627b        UCGCAGGAGAGAUGGCACUACC
mdm-miR3627c        UCGCAGGAGAGAUGGCACUA--
mdm-miR3627b        UCGCAGGAGAGAUGGCACUA--
mdm-miR3627a        UCGCAGGAGAGAUGGCACUA--
stu-miR3627-5p      UCGCAGGAGAGAUGGCACUUAG
                    *******************