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-miR3627b

Organism

Fragaria vesca

Species

Mature miRNA Sequence(5'-3')

UCGCAGGAGAGAUGGCACUACC

miRBase

Precursor miRNA Sequence(5'-3')

AUCCUGUCGCAGGAGAGAUGGCACUACCUAGCUUUACGCAUACGUAACGAGAUAUAUACGUACGUGGUAAAUAUAUAUAGAUGAGUUAUUGAUGGUGUAGCAGCUAGCUUGUGCCAUCCUCCUGUGAC

miRBase

Precursor miRNA Structure(5'-3') 

AUCCU          A        UAC      -      -AUAC     ---GAG       CG     
     GUCGCAGGAG GAUGGCAC   CUAGCU UUACGC     GUAAC      AUAUAUA  UACG 
     |||||||||| ||||||||   |||||| ||||||     |||||      |||||||  ||| U
     CAGUGUCCUC CUACCGUG   GAUCGA GAUGUG     UAUUG      UAUAUAU  AUGU 
-----          -        UUC      C      GUAGU     AGUAGA       AA

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