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

pvi-miR319c

Organism

Panicum virgatum

Species

Mature miRNA Sequence(5'-3')

AUUGGAUGGCGCGGGAGCUAA

PmiREN

Precursor miRNA Sequence(5'-3')

AATGGCCGTAGGGTTTCATTAGCTGCCGACTCATCCATTCACCTACCAAGATCCATGGACGCGGAATGTCTTGGTAGCTGATTGGATGGCGCGGGAGCTAAAATCAAGCTCTACGCTGTTT

PmiREN

Precursor miRNA Structure(5'-3') 

-      C         --CA      G   AC       U   C         ---   AUG 
 AAUGGC GUAGGGUUU    UUAGCU CCG  UCAUCCA UCA CUACCAAGA   UCC   G
 |||||| |||||||||    |||||| |||  ||||||| ||| |||||||||   |||    
 UUGUCG CAUCUCGAA    AAUCGA GGC  GGUAGGU AGU GAUGGUUCU   AGG   G
U      -         CUAA      G   GC       U   C         GUA   CGC

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

pvi-miR319c         AUUGGAUGGCGCGGGAGCUAA
osa-miR319a-3p      ACUGGAUGACGCGGGAGCUAA
                    * ****** ************