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

pha-miR3979

Organism

Panicum hallii

Species

Mature miRNA Sequence(5'-3')

UCCCUCUCUCCCUUGAAGGCU

PmiREN

Precursor miRNA Sequence(5'-3')

AATTGGCATGGCTCTCTTGGTCCCTCTCTCCCTTGAAGGCTCTCTCTGGTAAATCTGGTTGGCTTCCCGGCACATATCCAGTACCTTCTTGAGAAAGCCTTCGGGGAGGAGGGAGCCCAAGCAAGCCACAGTGCCT

PmiREN

Precursor miRNA Structure(5'-3') 

AAUU    ---     CU     --      U      U       C    U  -UAAAU    --U  -   U 
    GGCA   UGGCU  CUUGG  UCCCUC CUCCCU GAAGGCU UCUC GG      CUGG   UG GCU C
    ||||   |||||  |||||  |||||| |||||| ||||||| |||| ||      ||||   || |||  
    CCGU   ACCGA  GAACC  AGGGAG GAGGGG CUUCCGA AGAG UC      GACC   AC CGG G
---U    GAC     AC     CG      -      -       A    U  UUCCAU    UAU  A   C

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-
                    ** *****************