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

pvi-miR159c

Organism

Panicum virgatum

Species

Mature miRNA Sequence(5'-3')

UUGCAUGACCGAGGAGCUGC

PmiREN

Precursor miRNA Sequence(5'-3')

GTCCTTTCGAAGGGTGGTGCAGCTGCTCGTTCATGGTTCCCACTGTCCTATCTCATCGGCTTTGAGAGACATTGTGAGATCTAGTGAGGTGATTGGTTTTGAGATCGGCTTGTGGTTTGCATGACCGAGGAGCTGCATCGTCCCCTTGCTGACCGC

PmiREN

Precursor miRNA Structure(5'-3') 

---   CUUU   A   -          G    U     GUUC    UGU  U      -------   G   -UG   GACAU 
   GUC    CGA GGG UGGUGCAGCU CUCG UCAUG    CCAC   CC AUCUCA       UCG CUU   AGA     U
   |||    ||| ||| |||||||||| |||| |||||    ||||   || ||||||       ||| |||   |||      
   CAG    GUU CCC GCUACGUCGA GAGC AGUAC    GGUG   GG UAGAGU       AGU GAG   UCU     G
CGC   --UC   C   U          G    C     GUUU    UUC  C      UUUGGUU   G   UGA   AGAGU

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

pvi-miR159a           -UUGCAUGACCGAGGAGCUGC
pvi-miR159c           -UUGCAUGACCGAGGAGCUGC
bdi-miR159b-3p.3      UUUGCAUGACCGAGGAGCCGC
                       ***************** **