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

zma-miR156h-3p

Organism

Zea mays

Species

Mature miRNA Sequence(5'-3')

GCUCACUGCUCUUUCUGUCAUC

miRBase

Precursor miRNA Sequence(5'-3')

CGGGCUCGCGCGCGCGCGGUGACAGAAGAGAGUGAGCACACGGCCGGGCGUGACGGCACGUGCCGUCGCGGCCGCGUGCUCACUGCUCUUUCUGUCAUCCGCUGGUCCGGGCCUC

miRBase

Precursor miRNA Structure(5'-3') 

C       C  GC   C          -   -         A     GGGC        A 
 GGGCUCG GC  GCG GGUGACAGAA GAG AGUGAGCAC CGGCC    GUGACGGC C
 ||||||| ||  ||| |||||||||| ||| ||||||||| |||||    ||||||||  
 UCCGGGC UG  CGC CUACUGUCUU CUC UCACUCGUG GCCGG    CGCUGCCG G
C       C  GU   -          U   G         C     ----        U

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---
                     * *             ** *