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-miR482e

Organism

Prunus persica

Species

Mature miRNA Sequence(5'-3')

UUGCCUAUUCCUCCCAUGCCAA

miRBase

Precursor miRNA Sequence(5'-3')

GAGGAAGUUUUUGGCCAUGGGAAGUUUGGCAAGAAAUAUUUAUUAUAUAUUCUACUACUUCAAGUUCUGUUUGAAGUAUGUAUGUAUAAGUAGUUCUUGCCUAUUCCUCCCAUGCCAAUGAUUUCCUA

miRBase

Precursor miRNA Structure(5'-3') 

G        U     C      A -UUU        A       -      UUCUAC         U 
 AGGAAGUU UUGGC AUGGGA G    GGCAAGAA UAUUUAU UAUAUA      UACUUCAAG U
 |||||||| ||||| |||||| |    |||||||| ||||||| ||||||      ||||||||| C
 UCCUUUAG AACCG UACCCU C    CCGUUCUU AUGAAUA GUAUGU      AUGAAGUUU U
A        U     -      C UUAU        G       U      ------         G

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

osa-miR2118e        -UUCCCAAUGCCUCCCAUGCCUA
zma-miR2118f        -UUCCCAAUGCCUUCCAUGCCUA
osa-miR2118r        -UUCCCAAUGCCUCCCAUGCCUA
mac-miR482b         -UUUCCAAUACCUCCCAUGCCAA
ptc-miR482b-3p      -UUACCAAUACCUCUCAUGCCAA
stu-miR482c         -UUUCCUAUUCCACCCAUGCCAA
sly-miR482d-3p      -UUUCCUAUUCCACCCAUGCCAA
ppe-miR482e         -UUGCCUAUUCCUCCCAUGCCAA
mac-miR482a         -UUUCCAAUGCCUCCCAUGCCAA
ptc-miR1448         CUUUCCAACGCCUCCCAUAC---
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