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

vca-miR1168

Organism

Volvox carteri

Species

Mature miRNA Sequence(5'-3')

UGCAGCACGGAUGACGAAGACA

PmiREN

Precursor miRNA Sequence(5'-3')

AGAAGATCAGGGAGGACAACTGCAGCACGGATGACGAAGACACGCCATGCAGGGAGGCGTGAGCATTGACGGCCGTGCGCTCACGCCTCCCTGCGTGGTGTGTCTTCATCATCCCTGCTGCAGTTGTCCTCCTTGATCTTCTTC

PmiREN

Precursor miRNA Structure(5'-3') 

--                           C      C                             AUUG  G 
  AGAAGAUCAGGGAGGACAACUGCAGCA GGAUGA GAAGACACGCCAUGCAGGGAGGCGUGAGC    AC G
  ||||||||||||||||||||||||||| |||||| |||||||||||||||||||||||||||||    ||  
  UCUUCUAGUUCCUCCUGUUGACGUCGU CCUACU CUUCUGUGUGGUGCGUCCCUCCGCACUCG    UG G
CU                           C      A                             --CG  C

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

vca-miR1168        UGCAGCACGGAUGACGAAGACA
cre-miR1168.2      ---AGCACGGAAGGCGAAGA--
                      ******** * ******