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

ath-miR167c-3p

Organism

Arabidopsis thaliana

Species

Mature miRNA Sequence(5'-3')

UAGGUCAUGCUGGUAGUUUCACC

miRBase

Precursor miRNA Sequence(5'-3')

CCAGUAGCAGUUAAGCUGCCAGCAUGAUCUUGUCUUCCUCUCUUAGGUUUCAUAUAUAGUUAAUAAAUAUUUUAUAUAUUUCUUGUUCUUACAAGAUUAUAUGAUCAUAGCUUAGAGAGAGAGAGAGACUAGGUCAUGCUGGUAGUUUCACCUGCUAAUG

miRBase

Precursor miRNA Structure(5'-3') 

C  G      -UU                  U    -  -       -     ----       UAGUUAAUAAAUAUUUUAU 
 CA UAGCAG   AAGCUGCCAGCAUGAUCU GUCU UC CUCUCUU AGGUU    UCAUAUA                   A
 || ||||||   |||||||||||||||||| |||| || ||||||| |||||    |||||||                   U
 GU AUCGUC   UUUGAUGGUCGUACUGGA CAGA AG GAGAGAG UUCGA    AGUAUAU                   U
-  A      CAC                  U    G  A       A     UACU       UAGAACAUUCUUGUUCUUU

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
                               * * * *    *  * * *