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-miR391-5p

Organism

Solanum tuberosum

Species

Mature miRNA Sequence(5'-3')

UACGCAGGAGAGAUGAUGCUG

miRBase

Precursor miRNA Sequence(5'-3')

UACGCAGGAGAGAUGAUGCUGGACGAUAGAGAUAUGAGAAUAUUAAAGGGGCUUUAAUUUAUUGGCCAGCAUCAUACUCCUGCAUAUU

miRBase

Precursor miRNA Structure(5'-3') 

--UAC       AG          A       GAUAU   AAUAU 
     GCAGGAG  AUGAUGCUGG CGAUAGA     GAG     U
     |||||||  |||||||||| |||||||     |||     A
     CGUCCUC  UACUACGACC GUUAUUU     UUC     G
UUAUA       -A          G       --AAU   GGGGA

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

stu-miR391-5p      UACGCAGGAGAGAUGAUGCUG--
sly-miR391         -ACGCAGGAGAGAUGAUGCUGGA
gma-miR391-5p      UACGCAGGAGAGAUGACGCUGU-
mdm-miR391         UACGCAGGAGAGAUGACGCCG--
                    *************** ** *