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-miR1509a

Organism

Glycine max

Species

Mature miRNA Sequence(5'-3')

UUAAUCAAGGAAAUCACGGUCG

miRBase

Precursor miRNA Sequence(5'-3')

CUGCAUCUUCUUAAUCAAGGAAAUCACGGUCGCGUGUGUGCCGGAAAGAAAGUGGCCUGUGAUCUCCGGUUUCUCUUUCUCGACCGUGUUUCCUUGGUUAACGAUAUGUGC

miRBase

Precursor miRNA Structure(5'-3') 

CU    -CU  -             U        C ---UGUGU      -AAGAA  U 
  GCAU   UC UUAAUCAAGGAAA CACGGUCG G        GCCGGA      AG G
  ||||   || ||||||||||||| |||||||| |        ||||||      ||  
  CGUG   AG AAUUGGUUCCUUU GUGCCAGC C        UGGCCU      UC C
--    UAU  C             -        U UUUCUCUU      CUAGUG  C

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

gma-miR1509a         --UUAAUCAAGGAAAUCACGGUCG
gma-miR1509b         --UUAAUCAAGGAAAUCACGGUU-
mtr-miR1509a-3p      ACCGGAUUUCCUUGAUUAAAG---
                          **       ** *  *