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-miR7997c

Organism

Solanum tuberosum

Species

Mature miRNA Sequence(5'-3')

AUAUUGCUCGGACUCUUCAAAAAU

miRBase

Precursor miRNA Sequence(5'-3')

AUAUUGCUCGGACUCUUCAAAAAUGUUGAUAGAUGCAUGUCAAAUCUUCUAAAAAGUAGUGCAUUUUUGGAAGAUUCUACACUAAUAUGGCAAUAUUUUUGGAGAGUCCGAGCAACAUUU

miRBase

Precursor miRNA Structure(5'-3') 

--AUA                         AUAG  GCA   CA             GUA 
     UUGCUCGGACUCUUCAAAAAUGUUG    AU   UGU  AAUCUUCUAAAAA   G
     |||||||||||||||||||||||||    ||   |||  |||||||||||||    
     AACGAGCCUGAGAGGUUUUUAUAAC    UA   ACA  UUAGAAGGUUUUU   C
UUUAC                         GGUA  AUC   UC             ACG

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

stu-miR5303g      -AUAUUUUUGAAGAGUCUGAGCAAC
stu-miR5303i      -AUAUUUUUGAAGAGUCUGAGCAAC
stu-miR5303j      AAUAUUUUUGAAGAGUCUGAGCAA-
stu-miR5303h      AACAUUUUUGAAGAGUCUGAGCAA-
sly-miR5303       ----UUUUUGAAGAGUUCGAGCAAC
stu-miR7997a      -AUGCUGCUCGGACUCUUCAAA---
stu-miR7997b      -AUGCUGCUCGGACUCUUCAAA---
stu-miR7997c      -AUAUUGCUCGGACUCUUCAAAAAU
                       *  *          *