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

bdi-miR395k-5p

Organism

Brachypodium distachyon

Species

Mature miRNA Sequence(5'-3')

GUUCCCUGCAAGCACUUCAUG

miRBase

Precursor miRNA Sequence(5'-3')

GUACUACCAUGAGUUCCCUGCAAGCACUUCAUGAGGCCCAAUUCUGAGGGCUACUGUGAAGUGUUUGGGGGAACUCUUGGUGUUAC

miRBase

Precursor miRNA Structure(5'-3') 

   C     U         G             -A     AAU 
GUA UACCA GAGUUCCCU CAAGCACUUCAUG  GGCCC   U
||| ||||| ||||||||| |||||||||||||  |||||    
CAU GUGGU CUCAAGGGG GUUUGUGAAGUGU  UCGGG   G
   U     U         -             CA     AGU

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

zma-miR395b-5p      GUUCCCUACAAGCACUUCACAA
bdi-miR395o-5p      AUUCCCUACAAGCACUUCACA-
zma-miR395p-5p      GUUCCCUUCAAGCACUUCACAU
zma-miR395k-5p      GUUUCCUUCAAGCACUUCACAU
zma-miR395j-5p      GUUCCCUUCAAGCACUUCACAU
zma-miR395h-5p      GUUCCCUUCAAGCACUUCACAU
zma-miR395e-5p      GUUCCCUUCAAGCACUUCACAU
sit-miR395j         GUUCCCUUCAAGCACUUCACG-
zma-miR395i-5p      GUUCCCUACAAGCACUUCACGA
zma-miR395n-5p      GUUCUCUACAAGCACUUCACGA
bdi-miR395c-5p      GUUCCCUGCAAGCACUUCAUG-
bdi-miR395k-5p      GUUCCCUGCAAGCACUUCAUG-
bdi-miR395h-5p      GUUCCCUGCAAGCACUUCACG-
bdi-miR395l-5p      GUUCCCUGCAAGCACUUCACG-
bdi-miR395n-5p      GUUCCCUGCAAGCACUUCACC-
zma-miR395c-5p      GUUCCCUGCAAACACUUCACCA
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