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

ppt-miR477g-3p

Organism

Physcomitrella patens

Species

Mature miRNA Sequence(5'-3')

GUUGGAAGCCUUCGUGGGAGA

miRBase

Precursor miRNA Sequence(5'-3')

GUGUUCGUUUUUCUCCCUCAAAGGCUUCCAACAACAGUCGGAAUUAACUCUGAUGCGGCCAUUAUCACUGGUUGCAGUGAAUUAUUCUAGUUCUGCUGUUGGAAGCCUUCGUGGGAGACGAAAGAACC

miRBase

Precursor miRNA Structure(5'-3') 

GU    G   U      U A             A   --UC     U  C  UGA        UU 
  GUUC UUU UCUCCC C AAGGCUUCCAACA CAG    GGAAU AA UC   UGCGGCCA  A
  |||| ||| |||||| | ||||||||||||| |||    ||||| || ||   ||||||||  U
  CAAG AAG AGAGGG G UUCCGAAGGUUGU GUC    UCUUA UU AG   ACGUUGGU  C
-C    A   C      U C             C   UUGA     -  A  -UG        CA

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

ppt-miR477g-3p      GUUGGAAGCCUUCGUGGGAGA-------
csi-miR477a-5p      -------ACCUCCCUCGAAGGCUUCCAA
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