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

sly-miR482b

Organism

Solanum lycopersicum

Species

Mature miRNA Sequence(5'-3')

UCUUGCCUACACCGCCCAUGCC

miRBase

Precursor miRNA Sequence(5'-3')

GGAAAGGGAUGAAGAUUUUUGGGAAGCUUUUGGCGUGAGCGGUGGGGAAAGAUAGAUCUAUCAUAUUAGUAUGAUAUGAUAAAUCUUGCCUACACCGCCCAUGCCCAUGGCUUCCAAUGAUUUCU

miRBase

Precursor miRNA Structure(5'-3') 

GGAAAGGGAUGA     UUUG       UUU      A      -   A     AG   -       U 
            AGAUU    GGAAGCU   GGCGUG GCGGUG GGG AAGAU  AUC UAUCAUA U
            |||||    |||||||   |||||| |||||| ||| |||||  ||| |||||||  
            UUUAG    CCUUCGG   CCGUAC CGCCAC UCC UUCUA  UAG AUAGUAU U
----------UC     -UAA       UAC      C      A   G     AA   U       G

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

stu-miR482d-3p      UCUUGCCUACACCGCCCAUGCC
sly-miR482b         UCUUGCCUACACCGCCCAUGCC
mes-miR482e         UCUUACCUACACCGCCCAUGCC
mtr-miR482-3p       -CUUACCUACACCUCCCAUGCC
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