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-miR2109

Organism

Fragaria vesca

Species

Mature miRNA Sequence(5'-3')

UGCGAGUGUCUUCACCUCUGAA

miRBase

Precursor miRNA Sequence(5'-3')

GGCGGCGUGAAGGCUCUGCGAGUGUCUUCACCUCUGAAGCCUCUUUCUGAAGAAGCUCCUCUUCUUGUUUGGCUUCAGGGCGAAUACACUCUCAGACACUACACGCUCGCC

miRBase

Precursor miRNA Structure(5'-3') 

    -     A  GC    C      C   A  U        UCUUUCU     AG 
GGCG GCGUG AG  UCUG GAGUGU UUC CC CUGAAGCC       GAAGA  C
|||| ||||| ||  |||| |||||| ||| || ||||||||       |||||   
CCGC CGCAC UC  AGAC CUCACA AAG GG GACUUCGG       CUUCU  C
    U     A  AC    U      U   C  -        -UUUGUU     CC

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

fve-miR2109         UGCGAGUGUCUUCACCUCUGAA
gma-miR2109-5p      UGCGAGUGUCUUCGCCUCUG--
mtr-miR5213-5p      UACGUGUGUCUUCACCUCUGAA
                    * ** ******** ******