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

hvu-miR171-5p

Organism

Hordeum vulgare

Species

Mature miRNA Sequence(5'-3')

UGUUGGCUCGACUCACUCAGA

miRBase

Precursor miRNA Sequence(5'-3')

GCGGGUUGAUGGCCAGGAACUCCGACAAGAGGAGGAUGCUGAAACGGUCACUAUGAUGUUGGCUCGACUCACUCAGACCACGCCGGAGGGAGCCAUCUGCGGCGGCGGUUCUGAUUGAGCCGUGCCAAUAUCUUAGUGCUCUUUCAUGCUCGUCCCUUGUCGCCAUCACCCAC

miRBase

Precursor miRNA Structure(5'-3') 

GCGGGUUGAUGGCCAGGAACUCC      A   G  U  -     C  U     U         U  A    C     -  -A     G   GA 
                       GACAAG GGA GA GC UGAAA GG CACUA GAUGUUGGC CG CUCA UCAGA CC  CGCCG AGG  G
                       |||||| ||| || || ||||| || ||||| ||||||||| || |||| ||||| ||  ||||| |||   
                       CUGUUC CCU CU CG ACUUU UC GUGAU CUAUAACCG GC GAGU AGUCU GG  GCGGC UCU  A
-----------CACCCACUACCG      -   G  -  U     C  -     U         U  C    U     U  CG     G   AC

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

zma-miR171e-5p      UGUUGGCUCGGCUCACUCAGA
osa-miR171d-5p      UGUUGGCCCGGCUCACUCAGA
hvu-miR171-5p       UGUUGGCUCGACUCACUCAGA
bdi-miR171d-5p      UGUUGGCUCGACUCACUCAGA
osa-miR171e-5p      UGUUGGCUCGGCUCACUCAGA
zma-miR171d-5p      UGUUGGCUCGGCUCACUCAGA
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