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

ptc-miR171l-3p

Organism

Populus trichocarpa

Species

Mature miRNA Sequence(5'-3')

CGAGCCGAAUCAAUAUCACU

miRBase

Precursor miRNA Sequence(5'-3')

GGAGAAGUAGACACGGUGUGAUAUUGGUCCGGCUCAUCUUCUGUGCAUAAGCAUCUGAAGUUCUUCACUCAUGAAGACGAGCCGAAUCAAUAUCACUCUUGUAUGCUUCUUC

miRBase

Precursor miRNA Structure(5'-3') 

         G   C  U           C      AUCUUCUGUGCAUAAGCAUC 
GGAGAAGUA ACA GG GUGAUAUUGGU CGGCUC                    U
||||||||| ||| || ||||||||||| ||||||                    G
CUUCUUCGU UGU UC CACUAUAACUA GCCGAG                    G
         A   -  U           A      CAGAAGUACUCACUUCUUGA

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

ptc-miR171m         CGAGCCGAAUCAAUAUCACU-
ptc-miR171j         CGAGCCGAAUCAAUAUCACU-
ptc-miR171l-3p      CGAGCCGAAUCAAUAUCACU-
ppe-miR171d-3p      CGAGCCGAAUCAAUAUCACUC
gma-miR171r         CGAGCCGAAUCAAUACCACUC
gma-miR171s         CGAGCCGAAUCAAUACCACUC
                    *************** ****