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-miR156c-3p

Organism

Arabidopsis thaliana

Species

Mature miRNA Sequence(5'-3')

GCUCACUGCUCUAUCUGUCAGA

miRBase

Precursor miRNA Sequence(5'-3')

CGCAUAGAAACUGACAGAAGAGAGUGAGCACACAAAGGCACUUUGCAUGUUCGAUGCAUUUGCUUCUCUUGCGUGCUCACUGCUCUAUCUGUCAGAUUCCGGCU

miRBase

Precursor miRNA Structure(5'-3') 

C  AUA   A        -    -         A   ---     CUU     G 
 GC   GAA CUGACAGA AGAG AGUGAGCAC CAA   AGGCA   UGCAU U
 ||   ||| |||||||| |||| ||||||||| |||   |||||   ||||| U
 CG   CUU GACUGUCU UCUC UCACUCGUG GUU   UUCGU   ACGUA A
U  -GC   A        A    G         C   CUC     -UU     G

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

stu-miR156k-3p      GCUCACUGCUCUAUCUGUCACC
sly-miR156d-3p      GCUCACUGCUCUAUCUGUCACC
stu-miR156j-3p      GCUCACUGCUCUAUCUGUCACC
stu-miR156i-3p      GCUCACUGCUCUAUCUGUCACC
stu-miR156h-3p      GCUCACUGCUCUAUCUGUCACC
zma-miR156l-3p      GCUCACUGCUCUAUCUGUCACC
zma-miR156i-3p      GCUCACUGCUCUAUCUGUCAUC
bdi-miR156f-3p      GCUCACUGCUCUAUCUGUCAGC
osa-miR156b-3p      GCUCACU-CUCUAUCUGUCAGC
ath-miR156c-3p      GCUCACUGCUCUAUCUGUCAGA
aly-miR156a-3p      GCUCACUGCUCUUUCUGUCAGA
aly-miR156c-3p      GCUCACUGCUCUAUCUGUCAGA
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