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

mtr-miR5561-5p

Organism

Medicago truncatula

Species

Mature miRNA Sequence(5'-3')

CAUUUGGAGAGACAUAGACAA

miRBase

Precursor miRNA Sequence(5'-3')

UGGAAACUUUCAUUUGGAGAGACAUAGACAAAUGAAAUUAAAUGAUAAUUUAUUUCAAUGUCUAUCUCUCUCUAAAUGGAAGUGUCCAU

miRBase

Precursor miRNA Structure(5'-3') 

-    A                 C       AA      U    G 
 UGGA ACUUUCAUUUGGAGAGA AUAGACA  UGAAAU AAAU A
 |||| ||||||||||||||||| |||||||  |||||| ||||  
 ACCU UGAAGGUAAAUCUCUCU UAUCUGU  ACUUUA UUUA A
U    G                 C       -A      -    A

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

mtr-miR5290         AAUUUGGAGAGAGA-UAGACACAUA
mtr-miR5561-5p      CAUUUGGAGAGACA-UAGACAA---
fve-miR11286        ---UUGGAGAGAGAGUAGACAAUG-
                       ********* * ******