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

fve-miR2111b-3p

Organism

Fragaria vesca

Species

Mature miRNA Sequence(5'-3')

GCCCUUGGGAUGCGGAUUACC

miRBase

Precursor miRNA Sequence(5'-3')

UGAUAUUAUUGCGUCAGGAUCGGGUAAUCUGCAUCCUGAGGUUUAGAUCUGCUCAUAUGUUUGUUGUAUCUAGCCCUUGGGAUGCGGAUUACCUUGUCCUCACUGGCAAUGCAAUACUUGUCA

miRBase

Precursor miRNA Structure(5'-3') 

     -U      ---    ----    C                    U      - U  UCAU 
UGAUA  UAUUGC   GUCA    GGAU GGGUAAUCUGCAUCCUGAGG UUAGAU C GC    A
|||||  ||||||   ||||    |||| |||||||||||||||||||| |||||| | ||     
ACUGU  AUAACG   CGGU    CCUG UCCAUUAGGCGUAGGGUUCC GAUCUA G UG    U
     UC      UAA    CACU    U                    C      U U  UUUG

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

aly-miR2111a-3p      GUCCUCGGGAUGCGGAUUACC
aly-miR2111c-3p      GUCCUCGGGAUGCGGAUUACC
ath-miR2111a-3p      GUCCUCGGGAUGCGGAUUACC
bra-miR2111f         GACCUCAGGAUGCGGAUUACC
fve-miR2111b-3p      GCCCUUGGGAUGCGGAUUACC
bra-miR2111c         AUCCUCGGGAUGCGGAUUACC
aly-miR2111b-3p      AUCCUCGGGAUACAGAUUACC
bra-miR2111d         AUCCUCGGGACACAGAUUACC
ath-miR2111b-3p      AUCCUCGGGAUACAGUUUACC
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