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

bdi-miR156h-3p

Organism

Brachypodium distachyon

Species

Mature miRNA Sequence(5'-3')

GCUCACUGCUCUUCCUGUCAUC

miRBase

Precursor miRNA Sequence(5'-3')

CGGCUUGGGCGGUGACAGAAGAGAGUGAGCACACGGCCGGUCGUCACACGACGGCGCCGCCGUGUCGCGGCCGCGUGCUCACUGCUCUUCCUGUCAUCCACUAGCUCU

miRBase

Precursor miRNA Structure(5'-3') 

-C    U  GC        -     -         A      GUCGUCACACGAC 
  GGCU GG  GGUGACAG AAGAG AGUGAGCAC CGGCCG             G
  |||| ||  |||||||| ||||| ||||||||| ||||||              
  UCGA UC  CUACUGUC UUCUC UCACUCGUG GCCGGC             G
UC    -  AC        C     G         C      GCUGUGCCGCCGC

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

zma-miR156j-3p      UGCUCUCUGCUCUCACUGUCAUC
zma-miR156e-3p      -GCUCACUGCUCUCUCUGUCAUC
bdi-miR156h-3p      -GCUCACUGCUCUUCCUGUCAUC
csi-miR156f-5p      --AUGACAGAAGAGAGAGAGUAC
                       *  * *        *    *