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-miR156l-3p

Organism

Zea mays

Species

Mature miRNA Sequence(5'-3')

GCUCACUGCUCUAUCUGUCACC

miRBase

Precursor miRNA Sequence(5'-3')

GUGACAGAAGAGAGUGAGCACACGGCCGGGCGGAACGGCACCGGCGGAUGUGCCGUCGCGGCCGCGUGCUCACUGCUCUAUCUGUCACCC

miRBase

Precursor miRNA Structure(5'-3') 

--        -    -         A      G CGGA       CGG 
  GUGACAGA AGAG AGUGAGCAC CGGCCG G    ACGGCAC   C
  |||||||| |||| ||||||||| |||||| |    |||||||    
  CACUGUCU UCUC UCACUCGUG GCCGGC C    UGCCGUG   A
CC        A    G         C      G ----       UAG

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

stu-miR156k-3p      GCUCACUGCUCUAUCUGUCACC
sly-miR156d-3p      GCUCACUGCUCUAUCUGUCACC
stu-miR156j-3p      GCUCACUGCUCUAUCUGUCACC
stu-miR156i-3p      GCUCACUGCUCUAUCUGUCACC
stu-miR156h-3p      GCUCACUGCUCUAUCUGUCACC
zma-miR156l-3p      GCUCACUGCUCUAUCUGUCACC
zma-miR156i-3p      GCUCACUGCUCUAUCUGUCAUC
bdi-miR156f-3p      GCUCACUGCUCUAUCUGUCAGC
osa-miR156b-3p      GCUCACU-CUCUAUCUGUCAGC
ath-miR156c-3p      GCUCACUGCUCUAUCUGUCAGA
aly-miR156a-3p      GCUCACUGCUCUUUCUGUCAGA
aly-miR156c-3p      GCUCACUGCUCUAUCUGUCAGA
                    ******* **** *******