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

cru-miR825

Organism

Capsella rubella

Species

Mature miRNA Sequence(5'-3')

UUCUCGAGAAGGUGCAUGAGC

PmiREN

Precursor miRNA Sequence(5'-3')

CACTGATTCCATCAACTCGTTCAAGCACCAGCTCGAAGAAGCGTAGCTAATTTTATCTTCGAAGATTTGAAAAAAAGCTACGCTTCTCGAGAAGGTGCATGAGCAAGTTGATGCATATTTTGAT

PmiREN

Precursor miRNA Structure(5'-3') 

--CACUGAUUC        C     A     AG     A           AA    ---    U 
           CAUCAACU GUUCA GCACC  CUCGA GAAGCGUAGCU  UUUU   AUCU C
           |||||||| ||||| |||||  ||||| |||||||||||  ||||   ||||  
           GUAGUUGA CGAGU CGUGG  GAGCU CUUCGCAUCGA  AAAA   UAGA A
UAGUUUUAUAC        A     A     AA     -           AA    GUU    A

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

aly-miR825-3p      UUCUCGAGAAGGUGCAUGAAC
ath-miR825         UUCUCAAGAAGGUGCAUGAAC
cru-miR825         UUCUCGAGAAGGUGCAUGAGC
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