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

aly-miR156d-3p

Organism

Arabidopsis lyrata

Species

Mature miRNA Sequence(5'-3')

GCUCACUCUCUUUCUGUCAUA

miRBase

Precursor miRNA Sequence(5'-3')

AUGGGGGAAAAGAAGUUGACAGAAGAGAGUGAGCACACAAAGGGGAAGUUGUAUAGAAUUUUUGUAUAUGGUUGCUUUUGCGUGCUCACUCUCUUUCUGUCAUAACUUCUCCUUUCAU

miRBase

Precursor miRNA Structure(5'-3') 

       AAA      --        -            A      G  AGU          
AUGGGGG   AGAAGU  UGACAGAA GAGAGUGAGCAC CAAAGG GA   UGUAUAGAA 
|||||||   ||||||  |||||||| |||||||||||| |||||| ||   |||||||| U
UACUUUC   UCUUCA  ACUGUCUU CUCUCACUCGUG GUUUUC UU   AUAUGUUUU 
       --C      AU        U            C      G  GGU

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---
                     * *             ** *