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-miR7122a

Organism

Malus domestica

Species

Mature miRNA Sequence(5'-3')

UUAUACAGAGAAAUCACGGUCG

miRBase

Precursor miRNA Sequence(5'-3')

GGGUUCAUUCCAUUCUUUUAUACAGAGAAAUCACGGUCGAGAUCAAAACUCAGAAGUCUGUCAGAUUCUCUCUCUCCGUCGUCUCAACCGUGUUUUUCUGUAUAAAGAGAUGUACUGGAUCC

miRBase

Precursor miRNA Structure(5'-3') 

       UUC    C               U      C     -CAAAACUC   -       
GGGUUCA   CAUU UUUUAUACAGAGAAA CACGGU GAGAU         AGA AGUCUG 
|||||||   |||| ||||||||||||||| |||||| |||||         ||| ||||| U
CCUAGGU   GUAG GAAAUAUGUCUUUUU GUGCCA CUCUG         UCU UUAGAG 
       CAU    A               -      A     CUGCCUCUC   C

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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