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-miR5200a-5p

Organism

Brachypodium distachyon

Species

Mature miRNA Sequence(5'-3')

GCCUUAGGGAAUAUCUACACU

miRBase

Precursor miRNA Sequence(5'-3')

AAAGCACUAGAGCCUUAGGGAAUAUCUACACUAGUAAGUUCUUUUCCUUUCUUCUGGACAUGCUUAGCAGUGUAGAUACUCCCUAAGGCUUCGGUCGUAUU

miRBase

Precursor miRNA Structure(5'-3') 

AAA  -   A            A          AG     UCUUU   UUU 
   GC ACU GAGCCUUAGGGA UAUCUACACU  UAAGU     UCC   C
   || ||| |||||||||||| ||||||||||  |||||     |||    
   UG UGG UUCGGAAUCCCU AUAGAUGUGA  AUUCG     AGG   C
UUA  C   C            C          CG     --UAC   UCU

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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