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

mdm-miR1511

Organism

Malus domestica

Species

Mature miRNA Sequence(5'-3')

ACCUAGCUCUGAUACCAUGAA

miRBase

Precursor miRNA Sequence(5'-3')

GUGGGUCUAGUUCUCAUUCCAUUGUGGUAUCAGGACUAUGUUAUGUGAAUGUUGUUACACAAUAUUGUGUUACUCAUCUGUAUAACCUAGCUCUGAUACCAUGAACAAAAUUAAAUCUACGACCCAU

miRBase

Precursor miRNA Structure(5'-3') 

       -   -UUCUCAUUCCA             A   U      UGA   UU  U     A 
GUGGGUC UAG            UUGUGGUAUCAGG CUA GUUAUG   AUG  GU ACACA U
||||||| |||            ||||||||||||| ||| ||||||   |||  || |||||  
UACCCAG AUC            AGUACCAUAGUCU GAU CAAUAU   UAC  CA UGUGU U
       C   UAAAUUAAAACA             C   C      GUC   -U  U     U

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

bra-miR1511         -AACCUGGCUCUGAUACCAUGAAGU--
gma-miR1511         -AACCAGGCUCUGAUACCAUG------
cpa-miR8155         UAACCUGGCUCUGAUACCA--------
ppe-miR1511-3p      --ACCUGGCUCUGAUACCAUAAC----
mdm-miR1511         --ACCUAGCUCUGAUACCAUGAA----
fve-miR1511         --ACCUAGCUCUGAUACCAUGUG----
bdi-miR7782-3p      --ACCU-GCUCUGAUACCAUGUUGUGA
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