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

bdi-miR5200c

Organism

Brachypodium distachyon

Species

Mature miRNA Sequence(5'-3')

UGUAGAUACUCUCUAAGGCUU

miRBase

Precursor miRNA Sequence(5'-3')

UAAAGCCUUAGGGAGUAUCUACAGUGGCAAGUACUUUUCCACCAAGAAAGAAGAAUACUACCAGUGUAGAUACUCUCUAAGGCUUUA

miRBase

Precursor miRNA Structure(5'-3') 

                       G   CA    C     CACC 
UAAAGCCUUAGGGAGUAUCUACA UGG  AGUA UUUUC    A
||||||||||||||||||||||| |||  |||| |||||     
AUUUCGGAAUCUCUCAUAGAUGU ACC  UCAU AGAAG    A
                       G   -A    A     AAAG

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

tae-miR5200          --UGUAGAUACUCCCUAAGGCUU
bdi-miR5200a-3p      --UGUAGAUACUCCCUAAGGCUU
bdi-miR5200b-3p      --UGUAGAUACUCCCUAAGGCUU
bdi-miR5200c         --UGUAGAUACUCUCUAAGGCUU
bdi-miR5200a-5p      GCCUUAGGGAAUAUCUACACU--
bdi-miR5200b-5p      GCCUUAGAGAGUAUCUACACU--
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