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-miR166h-5p

Organism

Brachypodium distachyon

Species

Mature miRNA Sequence(5'-3')

GGUUUGUUGUCUGGCUCGGGG

miRBase

Precursor miRNA Sequence(5'-3')

UAGGUUAAGGGGUUUGUUGUCUGGCUCGGGGCUCCCGGUCUUGAUCGAUGCGCGACUCCAUCUCCCUUCACCGGGGAGACGUGCGUUGCGUACGUUGACCGGGGAUCUCGGACCAGGCUUCAAUCCCUUUAACCAUGCGG

miRBase

Precursor miRNA Structure(5'-3') 

----UA          U   UU      C      C        UUGAU  A        U - A       U 
      GGUUAAGGGG UUG  GUCUGG UCGGGG UCCCGGUC     CG UGCGCGAC C C UCUCCCU C
      |||||||||| |||  |||||| |||||| ||||||||     || |||||||| | | ||||||| A
      CCAAUUUCCC AAC  CGGACC GGCUCU GGGGCCAG     GC AUGCGUUG G G AGAGGGG G
GGCGUA          U   UU      A      A        ---UU  -        C U C       C

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

zma-miR166n-5p      GGAUUGUUGUCUGGCUCGGUG
csi-miR166f-5p      GGACUGUUGUCUGGCUCGAUG
bdi-miR166h-5p      GGUUUGUUGUCUGGCUCGGGG
                    **  **************  *