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-miR6281

Organism

Prunus persica

Species

Mature miRNA Sequence(5'-3')

GUUAGAGAUAGAGAGAGUGAG

miRBase

Precursor miRNA Sequence(5'-3')

AAGGAGGUCGAGUGUUAGAGAUAGAGAGAGUGAGUGAGAGACUAACAGUCGAUAUAGAGUGAUGGCGGUGGUGUGAGGCGUAGAACUAAGAGAGUGAUGGCGGUGGUGCGAGACUGUCAGUCUCUCAUUCACUCUCUCUGUCUCUGAUGCUCAAUCUCUU

miRBase

Precursor miRNA Structure(5'-3') 

A       C                                  A      -GA   -AGA  G  G  ---GG    GUGAG 
 AGGAGGU GAGUGUUAGAGAUAGAGAGAGUGAGUGAGAGACU ACAGUC   UAU    GU AU GC     UGGU     G
 ||||||| |||||||||||||||||||||||||||||||||| ||||||   |||    || || ||     ||||      
 UUCUCUA CUCGUAGUCUCUGUCUCUCUCACUUACUCUCUGA UGUCAG   GUG    CG UA UG     AUCA     U
-       A                                  C      AGC   GUGG  G  G  AGAGA    AGAUG

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

aly-miR156d-3p      -GCUCACU-CUCUUUCUGUCAUA--
zma-miR156h-3p      -GCUCACUGCUCUUUCUGUCAUC--
mtr-miR156d-3p      UGCUCACUCAUCUUUCUGUCAAA--
ath-miR156d-3p      -GCUCACU-CUCUUUUUGUCAUAAC
ppe-miR6281         -GUUAGAGAUAGAGAGAGUGAG---
                     * *             ** *