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

ath-miR2112-5p

Organism

Arabidopsis thaliana

Species

Mature miRNA Sequence(5'-3')

CGCAAAUGCGGAUAUCAAUGU

miRBase

Precursor miRNA Sequence(5'-3')

GUAUGAAAUGAUGCGCAAAUGCGGAUAUCAAUGUAAAUCAGGACAACAAACCAAUAGAGGUGCUCAGCGAAAACAACAAAAUGUGAAAAGGGUUUAUCAGAAACAUUGGGGUCAUGAUAUACCUUUAUAUCCGCAUUUGCGCAUCAUCUCUGAC

miRBase

Precursor miRNA Structure(5'-3') 

  AU  A                     C  U   A    G   AA   ACCAAUA  GGU    AGCGAAA   AC 
GU  GA AUGAUGCGCAAAUGCGGAUAU AA GUA AUCA GAC  CAA       GA   GCUC       ACA  A
||  || ||||||||||||||||||||| || ||| |||| |||  |||       ||   ||||       |||   
CA  CU UACUACGCGUUUACGCCUAUA UU CAU UAGU CUG  GUU       CU   UGGG       UGU  A
  GU  C                     U  C   A    A   GG   ACAAAGA  AUU    --AAAAG   AA

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

ath-miR2112-5p      CGCAAAUGCGGAUAUCAAUGU
aly-miR2112-5p      CGCAAAUGCGGAUAUCAAUGU
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