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

ath-miR158b

Organism

Arabidopsis thaliana

Species

Mature miRNA Sequence(5'-3')

CCCCAAAUGUAGACAAAGCA

miRBase

Precursor miRNA Sequence(5'-3')

AUCUCUGUGCUUCUUUGUCUACACUUUUGGAAAAGGUGAUGAUAUCAUUGCUUUUCCCCAAAUGUAGACAAAGCAAUACCGUGAU

miRBase

Precursor miRNA Structure(5'-3') 

   U U   CUU           CU     -A          A 
AUC C GUG   CUUUGUCUACA  UUUGG  AAAGGUGAUG U
||| | |||   |||||||||||  |||||  ||||||||||  
UAG G CAU   GAAACAGAUGU  AAACC  UUUUCGUUAC C
   U C   AAC           --     CC          U

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

bra-miR158b         --UCCCAAAUGUAGACAAAGCA
aly-miR158b-3p      --UCCCAAAUGUAGACAAAGC-
ath-miR158a-3p      --UCCCAAAUGUAGACAAAGCA
aly-miR158a-3p      --UCCCAAAUGUAGACAAAGCA
ath-miR158b         --CCCCAAAUGUAGACAAAGCA
esa-miR158b         UUUUCCAAAUGUUGACAAAGCA
bol-miR158          -UUUCCAAAUGUAGACAAAGCA
bra-miR158a         -UUUCCAAAUGUAGACAAAGCA
esa-miR158a         -UUUCCAAAUGUAGACAAAGCA
                        ******** ********