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-miR394b-3p

Organism

Arabidopsis lyrata

Species

Mature miRNA Sequence(5'-3')

AGGUGGACAUAUUGCCAACA

miRBase

Precursor miRNA Sequence(5'-3')

GAUCAUGCGGGUUUGACAAAAGAGUCUCUUACAGAGAUCUUUGGCAUUCUGUCCACCUCCUCUCUCUAUAUGUAUAUGUAUGAGCGCUGUCUUGUGAGGGGAGGUGGACAUAUUGCCAACAGAGAUCUGUUAGGGUUUCUUUGUAAAACCCCUCAUGAUU

miRBase

Precursor miRNA Structure(5'-3') 

       -C      G     A   U    U     GA   -      UUC              CUCUAUAUGUAUAUG 
GAUCAUG  GGGUUU ACAAA GAG CUCU ACAGA  UCU UUGGCA   UGUCCACCUCCUCU               U
|||||||  |||||| ||||| ||| |||| |||||  ||| ||||||   ||||||||||||||               A
UUAGUAC  CCCAAA UGUUU CUU GGGA UGUCU  AGA AACCGU   ACAGGUGGAGGGGA               A
       UC      A     -   U    U     AG   C      UAU              GUGUUCUGUCGCGAG

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

sly-miR394-3p       AGGUGGGCAUACUGUCAACA-
gma-miR394b-3p      AGGUGGGCAUACUGUCAACU-
ath-miR394b-3p      AGGUGGGCAUACUGCCAAUAG
aly-miR394a-3p      AGGUGGGUAUACUGCCAAUA-
zma-miR394a-3p      AGGUGGGCAUACUGCCAAUG-
zma-miR394b-3p      AGGUGGGCAUACUGCCAAUG-
aly-miR394b-3p      AGGUGGACAUAUUGCCAACA-
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