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

csi-miR477b-5p

Organism

Citrus sinensis

Species

Mature miRNA Sequence(5'-3')

CUCUCCCUCAAGGGCUUCUCU

miRBase

Precursor miRNA Sequence(5'-3')

CAAAAGCAAUCGUCGUUCACUCUCCCUCAAGGGCUUCUCUUCGAUCCAUAUAUAACGUACAUAUGCUCAAAUGAGUGGUGAUGGAUCGACGCUGAAGCCCUUAGGGCAGAGUGAUCGACUCCGGCUUUCUCAUUUUCC

miRBase

Precursor miRNA Structure(5'-3') 

--------CA     AAUC    U       -    C         -U U         AUAUAACGUA   AU    A 
          AAAGC    GUCG UCACUCU CCCU AAGGGCUUC  C UCGAUCCAU          CAU  GCUC A
          |||||    |||| ||||||| |||| |||||||||  | |||||||||          |||  ||||  
          UUUCG    CAGC AGUGAGA GGGA UUCCCGAAG  G AGCUAGGUA          GUG  UGAG G
CCUUUUACUC     GCCU    U       C    -         UC C         ----------   -G    U

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

ptc-miR477a-5p      -AUCUCCCUCAGAGGCUUCCAA-
ptc-miR477b         -AUCUCCCUCAGAGGCUUCCAA-
vvi-miR477a         -AUCUCCCUCAAAGGCUUCCAA-
mes-miR477f         -AUCUCCCUCAAAGGCUUCCA--
mes-miR477g         -AUCUCCCUCAAAGGCUUCCA--
ptc-miR477d-5p      -AUCUCCCUCAAAGGCUUCCUCU
ppt-miR477h         --UCUCCCUCAAAGGCUUCCA--
ppt-miR477c         -CUCUCCCUCAAAGGCUUCCA--
ppt-miR477a-5p      -CUCUCCCUCAAAGGCUUCCA--
ppt-miR477d         -CUCUCCCUCAAAGGCUUCCA--
ppt-miR477e         -CUCUCCCUCAAAGGCUUCCA--
ppt-miR477b         -CUCUCCCUCAAAGGCUUCCA--
csi-miR477b-5p      -CUCUCCCUCAAGGGCUUCUCU-
mes-miR477d         -CUCUCCCUCAAGGGCUUCUC--
stu-miR477a-5p      CCUCUCCCUCAAGGGCUUCUC--
                      *********  ******