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-miR169l-3p

Organism

Arabidopsis lyrata

Species

Mature miRNA Sequence(5'-3')

GGCAGUCUCCUUGGCUAUC

miRBase

Precursor miRNA Sequence(5'-3')

GUUAAGAAAUGUAUGAUGAAGAUGAGAGGUCUAACAUGGCGAAAAGAGUCAUGUUUAAUAGCCAAGGAUGACUUGCCUGAUCUUUUUCACCUCCAUGAUUCAAUUUGAAUUUCAUGGGUUUUGGAUUAUUAUGCAUCUAAAAGGUGUAAUAAUUCGAAAAUCAAGUUGAAUCUUGCGGGUUAGGUUUCAGGCAGUCUCCUUGGCUAUCUUGACAUACUCUUUUCAUCCAUGUUAUACCUAAUUUUCUUUUUUUAUUGAGGAUAUUUGAGGAU

miRBase

Precursor miRNA Structure(5'-3') 

GUUAAG      --AU        -U   ----    C        -C         C     -UA           U    U      UCUU   C    C  U            A    AUGGGUUUU       UA         
      AAAUGU    GAUGAAGA  GAG    AGGU UAACAUGG  GAAAAGAGU AUGUU   AUAGCCAAGGA GACU GCCUGA    UUU ACCU CA GAUUCAAUUUGA UUUC         GGAUUAU  UGCAUCUA 
      ||||||    ||||||||  |||    |||| ||||||||  ||||||||| |||||   ||||||||||| |||| ||||||    ||| |||| || |||||||||||| ||||         |||||||  ||||||| A
      UUUAUA    UUAUUUUU  CUU    UCCA AUUGUACC  CUUUUCUCA UACAG   UAUCGGUUCCU CUGA CGGACU    GGA UGGG GU CUAAGUUGAACU AAAG         CUUAAUA  AUGUGGAG 
UAGGAG      GGAG        UU   UUAA    U        UA         -     UUC           -    -      --UU   U    C  U            A    ---------       --

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

aly-miR169k-3p      GGCAGUCU---CCUUGGCUAUC
aly-miR169l-3p      GGCAGUCU---CCUUGGCUAUC
aly-miR169j-3p      GGCAGUCU---CCUUGGCUAUC
aly-miR169h-3p      GGCAGUCU---CCUUGGCUAUU
stu-miR169a-3p      -GCAGUCU---CCUUGGCUACU
stu-miR169b-3p      -GCAGUCU---CCUUGGCUACU
stu-miR169c-3p      -GCAGUCU---CCUUGGCUACC
mtr-miR169d-3p      GGCAGGUCAUCCUUCGGCUAUA
mtr-miR169e-3p      GGCAGGUCAUCCUUCGGCUAUA
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