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-miR156d-3p

Organism

Medicago truncatula

Species

Mature miRNA Sequence(5'-3')

UGCUCACUCAUCUUUCUGUCAAA

miRBase

Precursor miRNA Sequence(5'-3')

GAAAUUGACAGAAGAGAGUGAGCACAUAGACACUCGGUAUAGAUGUAUAUCGUUGCCUUUGCGUGCUCACUCAUCUUUCUGUCAAAUUCC

miRBase

Precursor miRNA Structure(5'-3') 

-   A         -  -          A    CA -U       G 
 GAA UUGACAGAA GA GAGUGAGCAC UAGA  C  CGGUAUA A
 ||| ||||||||| || |||||||||| ||||  |  |||||||  
 CUU AACUGUCUU CU CUCACUCGUG GUUU  G  GCUAUAU U
C   A         U  A          C    CC UU       G

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---
                     * *             ** *