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

mtr-miR169e-3p

Organism

Medicago truncatula

Species

Mature miRNA Sequence(5'-3')

GGCAGGUCAUCCUUCGGCUAUA

miRBase

Precursor miRNA Sequence(5'-3')

GAAAUGGAGCCAAGGAUGACUUGCCGGUAUAUUAGUUUGUCGCUAAAGCUAACUAGCUUUAGUUGUUGGGUACUCCCGGCAGGUCAUCCUUCGGCUAUAUU

miRBase

Precursor miRNA Structure(5'-3') 

GA    G    -                UAUAU  G  UGUC         A 
  AAUG AGCC AAGGAUGACUUGCCGG     UA UU    GCUAAAGCU A
  |||| |||| ||||||||||||||||     || ||    |||||||||  
  UUAU UCGG UUCCUACUGGACGGCC     AU GG    UGAUUUCGA A
--    A    C                --CUC  G  UUGU         U

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

aly-miR169k-3p      GGCAGUCU---CCUUGGCUAUC
aly-miR169l-3p      GGCAGUCU---CCUUGGCUAUC
aly-miR169j-3p      GGCAGUCU---CCUUGGCUAUC
aly-miR169h-3p      GGCAGUCU---CCUUGGCUAUU
stu-miR169a-3p      -GCAGUCU---CCUUGGCUACU
stu-miR169b-3p      -GCAGUCU---CCUUGGCUACU
stu-miR169c-3p      -GCAGUCU---CCUUGGCUACC
mtr-miR169d-3p      GGCAGGUCAUCCUUCGGCUAUA
mtr-miR169e-3p      GGCAGGUCAUCCUUCGGCUAUA
                     ****      * * *****