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

stu-miR167a-3p

Organism

Solanum tuberosum

Species

Mature miRNA Sequence(5'-3')

GAUCAUGUGGCAGCCUCACC

miRBase

Precursor miRNA Sequence(5'-3')

UGAAGCUGCCAGCAUGAUCUAAACUUCCCUUUUUAGUUCAAAUAUGAUAUGAGGAAAGAUCAGAUCAUGUGGCAGCCUCACC

miRBase

Precursor miRNA Structure(5'-3') 

--   A       G        AAA   C    UUUAGU   A 
  UGA GCUGCCA CAUGAUCU   CUU CCUU      UCA A
  ||| ||||||| ||||||||   ||| ||||      |||  
  ACU CGACGGU GUACUAGA   GAA GGAG      AGU U
CC   C       -        CUA   A    ---UAU   A

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

mpo-miR-b3.0r1-8350      --CGGAUCAUG-UGG-AGACUCACC---
stu-miR167a-3p           ----GAUCAUG-UGGCAGCCUCACC---
csi-miR167d-3p           AUCGGAUCAUG-UGGUAGCUUCACC---
stu-miR167d-3p           ----GAUCAUG-UGGUUGCUUCACC---
mtr-miR167b-3p           ----GAUCAUG-UUGGAGCUUCACC---
ath-miR167c-3p           --UAGGUCAUGCUGGUAGUUUCACC---
stu-miR167b-3p           ----GAUCAUG-UGGCAGCAUCACC---
bol-miR167c              ------UGAAGCUGCCAGCAUGAUCUAU
mac-miR167a              ------UGAAGCUGCCAGCAUGAUCUGA
                               * * * *    *  * * *