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

ppe-miR7122a-5p

Organism

Prunus persica

Species

Mature miRNA Sequence(5'-3')

UUAUACAAUGAAAUCACGGCCG

miRBase

Precursor miRNA Sequence(5'-3')

UUCAUCUUUUGCAAAAUCAAUCGAUCAAAGGGUUCAUUCCAUUUUUUUAUACAAUGAAAUCACGGCCGAGAAAAGAACAGAAGAUUCUUUCUGACUCUCUCUCUCUCCUCUCUGCCGUGUUUCUUUGUAUAAAGAGAUGUACUGGACCCGUUCAAUCCUUUUGAUUUGACAGAUUGGA

miRBase

Precursor miRNA Structure(5'-3') 

    UCU    CA       -UC   CA  -       UUC               U    U      C    AA   AC   -   U  U 
UUCA   UUUG  AAAUCAA   GAU  AA GGGUUCA   CAUUUUUUUAUACAA GAAA CACGGC GAGA  AGA  AGA AGA UC U
||||   ||||  |||||||   |||  || |||||||   ||||||||||||||| |||| |||||| ||||  |||  ||| ||| || U
AGGU   AGAC  UUUAGUU   CUA  UU CCCAGGU   GUAGAGAAAUAUGUU CUUU GUGCCG CUCU  UCU  UCU UCU AG G
    --U    AG       UUC   AC  G       CAU               U    -      U    CC   -C   C   C  U

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

ppe-miR7122b-5p      UUAUACAAUGAAAUCACGGUCG
ppe-miR7122a-5p      UUAUACAAUGAAAUCACGGCCG
stu-miR7122-5p       UUAUACAGAGAAACCGCUGUCG
mdm-miR7122b         UUAUACAGAGAAAUCACGGUCG
mdm-miR7122a         UUAUACAGAGAAAUCACGGUCG
csi-miR3954b-5p      UUGGACAGAGAAAUCACGGUCA
csi-miR3954          -UGGACAGAGAAAUCACGGUCA
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