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

osa-miR168a-3p

Organism

Oryza sativa

Species

Mature miRNA Sequence(5'-3')

GAUCCCGCCUUGCACCAAGUGAAU

miRBase

Precursor miRNA Sequence(5'-3')

CGCCUCGGGCUCGCUUGGUGCAGAUCGGGACCCGCCGCCGCCGCUGCCGGGGCCGGAUCCCGCCUUGCACCAAGUGAAUCGGAGCCG

miRBase

Precursor miRNA Structure(5'-3') 

  C   G  C             AU     C   CC   G   C 
CG CUC GG UCGCUUGGUGCAG  CGGGA CCG  GCC CCG U
|| ||| || |||||||||||||  ||||| |||  ||| |||  
GC GAG CU AGUGAACCACGUU  GCCCU GGC  CGG GGC C
  C   G  A             CC     A   --   -   C

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

zma-miR168a-3p      ---CCCGCCUUGCACCAAGUGAA-
bdi-miR168-3p       ---CCCGCCUUGCACCAAGUGAAU
hvu-miR168-3p       GAUCCCGCCUUGCACCAAGUGAAU
osa-miR168a-3p      GAUCCCGCCUUGCACCAAGUGAAU
zma-miR168b-3p      ---CCCGCCUUGCAUCAAGUGAA-
csi-miR168-3p       ---CCCGCCUUGCAUCAACUGAAU
sly-miR168a-3p      ---CCUGCCUUGCAUCAACUGAAU
fve-miR168-3p       ---CCCGCCUUGCAUCAACUGAAU
sly-miR168b-3p      ---CCCGCCUUGCAUCAACUGAAU
mtr-miR168c-3p      ---CCCGCCUUGCAUCAACUGAAU
aly-miR168a-3p      ---CCCGCCUUGCAUCAACUGAAU
ptc-miR168b-3p      ---CCCGCCUUGCAUCAACUGAAU
ptc-miR168a-3p      ---CCCGCCUUGCAUCAACUGAAU
ath-miR168a-3p      ---CCCGCCUUGCAUCAACUGAAU
esa-miRN1029        --UCCCGACU-GCAUCAACUGAAU
                       ** * ** *** *** ****