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

zma-miR156j-3p

Organism

Zea mays

Species

Mature miRNA Sequence(5'-3')

UGCUCUCUGCUCUCACUGUCAUC

miRBase

Precursor miRNA Sequence(5'-3')

CGAGUGGACCUCGGGAGCGAUGACAGAAGAGAGAGAGCACAACCCAGCACCAGCGAGGAAAAGCCUCGCUUCUGCGAGGGCCGUGUGCUCUCUGCUCUCACUGUCAUCGCCCACAGGCCACCGAA

miRBase

Precursor miRNA Structure(5'-3') 

--  A    A   CG  A          -A    -          --A   -A   CC       A 
  CG GUGG CCU  GG GCGAUGACAG  AGAG AGAGAGCACA   CCC  GCA  AGCGAGG A
  || |||| |||  || ||||||||||  |||| ||||||||||   |||  |||  ||||||| A
  GC CACC GGA  CC CGCUACUGUC  UCUC UCUCUCGUGU   GGG  CGU  UCGCUCC C
AA  -    -   CA  -          AC    G          GCC   AG   CU       G

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

zma-miR156j-3p      UGCUCUCUGCUCUCACUGUCAUC
zma-miR156e-3p      -GCUCACUGCUCUCUCUGUCAUC
bdi-miR156h-3p      -GCUCACUGCUCUUCCUGUCAUC
csi-miR156f-5p      --AUGACAGAAGAGAGAGAGUAC
                       *  * *        *    *