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-miR171d-5p

Organism

Brachypodium distachyon

Species

Mature miRNA Sequence(5'-3')

UGUUGGCUCGACUCACUCAGA

miRBase

Precursor miRNA Sequence(5'-3')

GCUGAGGCAAGGGAAUGAUGAAAUGGCCACUAUGAUGUUGGCUCGACUCACUCAGACGACACCGGCCGGAGCGAUGCGUGCGUGCUAGCUCGACGGCGUGUUUCUGAUUGAGCCGUGCCAAUAUCUUAGUGCUCUUUCAUGCAUAGAAGCUAUCUU

miRBase

Precursor miRNA Structure(5'-3') 

GCUGA   AAGGGA   -      U   C    U         U  A    C     C     CG    --    GAU  GU 
     GGC      AUG AUGAAA GGC ACUA GAUGUUGGC CG CUCA UCAGA GACAC  GCCG  GAGC   GC  G
     |||      ||| |||||| ||| |||| ||||||||| || |||| ||||| |||||  ||||  ||||   ||   
     UCG      UAC UACUUU UCG UGAU CUAUAACCG GC GAGU AGUCU UUGUG  CGGC  CUCG   CG  U
UUCUA   --AAGA   G      C   -    U         U  C    U     -     --    AG    -AU  UG

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
                    ******* ** **********