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

ath-miR4243

Organism

Arabidopsis thaliana

Species

Mature miRNA Sequence(5'-3')

UUGAAAUUGUAGAUUUCGUAC

miRBase

Precursor miRNA Sequence(5'-3')

AAAGAACCGUGAAUUACAGUUGAAAUUGUAGAUUUCGUACAUGACAAUAAUUUGCUCGAGCAUCACUUUCAUGAUUUUGUGGUCUGUGUUGCCGUAUUUGAGAGCAUACAUUUCAUGUUCGAAAUCUACGAUUUUAACUCUAAUUUUUGGAUGGUUCUUUAUUUCAAUUACAGAGGGAU

miRBase

Precursor miRNA Structure(5'-3') 

-------------------          ----      C                    U      C   AAUU     -------GA   U   -UU    GA 
                   AAAGAACCGU    GAAUUA AGUUGAAAUUGUAGAUUUCG ACAUGA AAU    UGCUC         GCA CAC   UCAU  U
                   ||||||||||    |||||| |||||||||||||||||||| |||||| |||    |||||         ||| |||   ||||   
                   UUUCUUGGUA    UUUAAU UCAAUUUUAGCAUCUAAAGC UGUACU UUA    ACGAG         CGU GUG   GGUG  U
UAGGGAGACAUUAACUUUA          GGUU      C                    U      -   -CAU     AGUUUAUGC   U   UCU    UU

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

aly-miR4243      -UGAAAUUAUAGAUUUCGUACA
ath-miR4243      UUGAAAUUGUAGAUUUCGUAC-
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