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

sly-miR319c-5p

Organism

Solanum lycopersicum

Species

Mature miRNA Sequence(5'-3')

AGAGCUUCCUUCAGCCCACUC

miRBase

Precursor miRNA Sequence(5'-3')

GGAAUGGUCCAAGAGAGCUUCCUUCAGCCCACUCACGGAGGAGAAAUGGGGUUGAAUUAGCUGCCGACUCAUUCAUCCAACCACUCAGUAGAAAGGAUAGGUUUUGUGCUACUGUGAUUGAGUGAAUGAUGCGGGAGAUAGUUUUCUAUCCCUCUCUUUCCUUGCUUGGACUGAAGGGAGCUCCUUUUCCCCAUU

miRBase

Precursor miRNA Structure(5'-3') 

GG     -UCC   A             C   CU  C    -    AAU     --U      G  G   AC        C   C   -UC    G    GA 
  AAUGG    AAG GAGCUUCCUUCAG CCA  CA GGAG GAGA   GGGGU   GAAUUA CU CCG  UCAUUCAU CAA CAC   AGUA AAAG  U
  |||||    ||| ||||||||||||| |||  || |||| ||||   |||||   |||||| || |||  |||||||| ||| |||   |||| ||||   
  UUACC    UUC CUCGAGGGAAGUC GGU  GU CCUU CUCU   CCCUA   UUUGAU GA GGC  AGUAAGUG GUU GUG   UCGU UUUU  G
--     CCUU   -             A   UC  U    U    ---     UCU      A  G   GU        A   A   UCA    G    GG

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

zma-miR319b-5p      AGAGCGUCCUUCAGUCCACUC
zma-miR319d-5p      AGAGCGUCCUUCAGUCCACUC
sly-miR319c-5p      AGAGCUUCCUUCAGCCCACUC
aly-miR319a-5p      AGAGCUUCCUUGAGUCCAUUC
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