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-miR156k-3p

Organism

Zea mays

Species

Mature miRNA Sequence(5'-3')

GCUCGCUUCUCUUUCUGUCAGC

miRBase

Precursor miRNA Sequence(5'-3')

GGCUUAGGCCCCGAAGAGAUUGACAGAAGAGAGCGAGCACCUGGCGCGGCGACCGGCAUGGAACGCAUGCCGUCCCCGCCGCGUGCUCGCUUCUCUUUCUGUCAGCCUCUCCCUCGUCCUGAG

miRBase

Precursor miRNA Structure(5'-3') 

GG      CCC   ---    A         -    -        C     C  C   C      G 
  CUUAGG   CGA   AGAG UUGACAGAA GAGA GCGAGCAC UGGCG GG GAC GGCAUG A
  ||||||   |||   |||| ||||||||| |||| |||||||| ||||| || ||| |||||| A
  GAGUCC   GCU   UCUC GACUGUCUU CUCU CGCUCGUG GCCGC CC CUG CCGUAC C
--      --U   CCC    C         U    U        C     -  -   -      G

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

osa-miR156j-3p      -GCUCGCUCCUCUUUCUGUCAGC
csi-miR156a-3p      UGCUCGCUCCUCUU-CUGUCAGC
zma-miR156k-3p      -GCUCGCUUCUCUUUCUGUCAGC
                     ******* ***** ********