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-miR167d-3p

Organism

Solanum tuberosum

Species

Mature miRNA Sequence(5'-3')

GAUCAUGUGGUUGCUUCACC

miRBase

Precursor miRNA Sequence(5'-3')

UGAAGCUGCCAGCAUGAUCUAAACUUACCUACAAAUUUAUAUUGAGGCAAGAUCAGAUCAUGUGGUUGCUUCACC

miRBase

Precursor miRNA Structure(5'-3') 

--      U    G        AAA   A   A   AU 
  UGAAGC GCCA CAUGAUCU   CUU CCU CAA  U
  |||||| |||| ||||||||   ||| ||| |||  U
  ACUUCG UGGU GUACUAGA   GAA GGA GUU  A
CC      U    -        CUA   C   -   AU

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
                               * * * *    *  * * *