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-miR167a-3p

Organism

Arabidopsis lyrata

Species

Mature miRNA Sequence(5'-3')

GAUCAUGUUCGCAGUUUCACC

miRBase

Precursor miRNA Sequence(5'-3')

GGUGCACCGGCAUCUGAUGAAGCUGCCAGCAUGAUCUAAUUAGCUUUCUUUAUAUCUGUUGUUGUGUUUCAUAACGAUGGUUAAGAGAUGAGUCUCGAUUAGAUCAUGUUCGCAGUUUCACCCGUUGACUGUCGCACC

miRBase

Precursor miRNA Structure(5'-3') 

     AC   -  U U A         C              -  -   -     A  U             
GGUGC  CGG CA C G UGAAGCUGC AGCAUGAUCUAAUU AG CUU UCUUU UA CUGUUGUUGUGU 
|||||  ||| || | | ||||||||| |||||||||||||| || ||| ||||| || ||||||||||| U
CCACG  GUC GU G C ACUUUGACG UUGUACUAGAUUAG UC GAG AGAGA AU GGUAGCAAUACA 
     CU   A  U C C         C              C  U   U     -  U

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

csi-miR167a-3p      AGAUCAUCUG-GCAGUUUCACC
mdm-miR167a         AGAUCAUCUG-GCAGUUUCACC
ptc-miR167h-3p      AGAUCAUGUG-GCAGUUUCACC
ptc-miR167g-3p      AGAUCAUGUG-GCAGUUUCACC
ptc-miR167f-3p      AGAUCAUGUG-GCAGUUUCACC
ath-miR167a-3p      -GAUCAUGUUCGCAGUUUCACC
aly-miR167a-3p      -GAUCAUGUUCGCAGUUUCACC
zma-miR167h-3p      -GAUCAUGUU-GCAGCUUCAC-
bdi-miR167d-3p      AGAUCAUGUU-GCAGCUUCAC-
zma-miR167i-3p      -GAUCAUGUU-GCAGCUUCAC-
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