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-miR5200b-3p

Organism

Brachypodium distachyon

Species

Mature miRNA Sequence(5'-3')

UGUAGAUACUCCCUAAGGCUU

miRBase

Precursor miRNA Sequence(5'-3')

CACUAGUAAAGCCUUAGAGAGUAUCUACACUGGUAGUAUUCUUCUUUCUUGGUGGAAAAGUACUUGCCACUGUAGAUACUCCCUAAGGCUUUAACAGGAGG

miRBase

Precursor miRNA Structure(5'-3') 

--CA  AG           A           C     -     C    UUC 
    CU  UAAAGCCUUAG GAGUAUCUACA UGGUA GUAUU UUCU   U
    ||  ||||||||||| ||||||||||| ||||| ||||| ||||    
    GA  AUUUCGGAAUC CUCAUAGAUGU ACCGU CAUGA AAGG   G
GGAG  CA           C           C     U     A    UGG

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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