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

gma-miR171s

Organism

Glycine max

Species

Mature miRNA Sequence(5'-3')

CGAGCCGAAUCAAUACCACUC

miRBase

Precursor miRNA Sequence(5'-3')

GAAGUGGACUGGCGUGGUAUUGCUUCUGUUCAUCUUUGCAUAUGAAUUUAAUCACAUCCUCUUAAAUAAGACGAGCCGAAUCAAUACCACUCUAGUACACUU

miRBase

Precursor miRNA Structure(5'-3') 

G     G     C         C   U    A    UGCAUAUGAAUUUA 
 AAGUG ACUGG GUGGUAUUG UUC GUUC UCUU              A
 ||||| ||||| ||||||||| ||| |||| ||||              U
 UUCAC UGAUC CACCAUAAC AAG CGAG AGAA              C
-     A     U         U   C    C    UAAAUUCUCCUACA

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
                    *************** ****