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

sit-miR3979

Organism

Setaria italica

Species

Mature miRNA Sequence(5'-3')

UCCCUCUCUCCCUUGAAGGCU

PmiREN

Precursor miRNA Sequence(5'-3')

AATTGGCATGGCTCTCTTGGTCCCTCTCTCCCTTGAAGGCTTTCTCTGGTAAATCTTGTTGGCTTCGCAGCACATATCCAGTGCTTTCTTGAGAAAGCCTTCAGGGGGGAGGGAACCCAAGCAAGCCACAGTGCCTGT

PmiREN

Precursor miRNA Structure(5'-3') 

AAUU    ---     CU     UCC                       ----------   UAAAUCU     GC 
    GGCA   UGGCU  CUUGG   CUCUCUCCCUUGAAGGCUUUCUC          UGG       UGUUG  U
    ||||   |||||  |||||   |||||||||||||||||||||||          |||       |||||   
    CCGU   ACCGA  GAACC   GGGAGGGGGGACUUCCGAAAGAG          ACC       ACGAC  G
-UGU    GAC     AC     CAA                       UUCUUUCGUG   --UAUAC     GC

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

pha-miR3979         UCCCUCUCUCCCUUGAAGGCU
sit-miR3979         UCCCUCUCUCCCUUGAAGGCU
osa-miR3979-5p      UCUCUCUCUCCCUUGAAGGC-
                    ** *****************