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

aly-miR156c-3p

Organism

Arabidopsis lyrata

Species

Mature miRNA Sequence(5'-3')

GCUCACUGCUCUAUCUGUCAGA

miRBase

Precursor miRNA Sequence(5'-3')

GCAUAGAAACUGACAGAAGAGAGUGAGCACACAAAGGCACUUUGCAUGUUCGAUGCAUUUGCUUCUCUUGCGUGCUCACUGCUCUAUCUGUCAGAUUUCGGC

miRBase

Precursor miRNA Structure(5'-3') 

GCAUA    -        -    -         A   ---     CUU     G 
     GAAA CUGACAGA AGAG AGUGAGCAC CAA   AGGCA   UGCAU U
     |||| |||||||| |||| ||||||||| |||   |||||   ||||| U
     CUUU GACUGUCU UCUC UCACUCGUG GUU   UUCGU   ACGUA A
--CGG    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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