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

aly-miR2111b-3p

Organism

Arabidopsis lyrata

Species

Mature miRNA Sequence(5'-3')

AUCCUCGGGAUACAGAUUACC

miRBase

Precursor miRNA Sequence(5'-3')

GUACUUGGUGAUGAACGGGUAAUCUGCAUCCUGAGGUUUAAAACUUUAUAAGCAUUUACGUAUGUGACUAUAUAGUUUUUUUAAUCCUCGGGAUACAGAUUACCUCUUCCUUACUCGAAGUAC

miRBase

Precursor miRNA Structure(5'-3') 

      --     U   C          C         U     ---   U    AG   UUA 
GUACUU  GGUGA GAA GGGUAAUCUG AUCCUGAGG UUAAA   ACU UAUA  CAU   C
||||||  ||||| ||| |||||||||| ||||||||| |||||   ||| ||||  |||    
CAUGAA  UCAUU CUU UCCAUUAGAC UAGGGCUCC AAUUU   UGA AUAU  GUG   A
      GC     C   C          A         U     UUU   U    CA   UAU

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

aly-miR2111a-3p      GUCCUCGGGAUGCGGAUUACC
aly-miR2111c-3p      GUCCUCGGGAUGCGGAUUACC
ath-miR2111a-3p      GUCCUCGGGAUGCGGAUUACC
bra-miR2111f         GACCUCAGGAUGCGGAUUACC
fve-miR2111b-3p      GCCCUUGGGAUGCGGAUUACC
bra-miR2111c         AUCCUCGGGAUGCGGAUUACC
aly-miR2111b-3p      AUCCUCGGGAUACAGAUUACC
bra-miR2111d         AUCCUCGGGACACAGAUUACC
ath-miR2111b-3p      AUCCUCGGGAUACAGUUUACC
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