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

ptc-miR1446b

Organism

Populus trichocarpa

Species

Mature miRNA Sequence(5'-3')

UUCUGAACUCUCUCCCUCAA

miRBase

Precursor miRNA Sequence(5'-3')

CCAAUUUCUUCUGAACUCUCUCCCUCAACCGCCACUCUAGAGGUUGGCACCUUGUCAAUUGUUUCUGUGUAGCGGUCGAGGUGAGGGGUUCAGAACAUGUUGG

miRBase

Precursor miRNA Structure(5'-3') 

     UUC          U   -    A     C  UC     ---         
CCAAU   UUCUGAACUC CUC CCUC ACCGC AC  UAGAG   GUUGGCAC 
|||||   |||||||||| ||| |||| ||||| ||  |||||   ||||||| C
GGUUG   AAGACUUGGG GAG GGAG UGGCG UG  GUCUU   UAACUGUG 
     UAC          -   U    C     A  -U     UGU

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

gma-miR1446       UUCUGAACUCUCUCCCUCAAU
ptc-miR1446a      UUCUGAACUCUCUCCCUCAA-
ptc-miR1446b      UUCUGAACUCUCUCCCUCAA-
ptc-miR1446c      UUCUGAACUCUCUCCCUCAA-
ptc-miR1446d      UUCUGAACUCUCUCCCUCAA-
ptc-miR1446e      UUCUGAACUCUCUCCCUCAA-
mes-miR1446       UUCUGAACUCUCUCCCUCAU-
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