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-miR160a-3p

Organism

Arabidopsis lyrata

Species

Mature miRNA Sequence(5'-3')

GCGUAUGAGGAGCCAUGCAUA

miRBase

Precursor miRNA Sequence(5'-3')

CGCCUAUACAUGUAUAUAGAUGUAUAUGUAUUAUAUAUGUAUGCCUGGCUCCCUGUAUGCCAUAUGCUGAGCUCAUCGAGUAUCGAUGACCUCCGUGGAUGGCGUAUGAGGAGCCAUGCAUAUCCUCAUACAUAUAUAUACAUAAUUAUGUGAUGGUG

miRBase

Precursor miRNA Structure(5'-3') 

    UA      UAUAUAG            UAUAUAU      C       C          AU  U   C         
CGCC  UACAUG       AUGUAUAUGUAU       GUAUGC UGGCUCC UGUAUGCCAU  GC GAG UCAUCGAG 
||||  ||||||       ||||||||||||       |||||| ||||||| ||||||||||  || ||| ||||||| U
GUGG  GUGUAU       UAUAUAUACAUA       UAUACG ACCGAGG GUAUGCGGUA  UG CUC AGUAGCUC 
    UA      UAAUACA            ---CUCC      U       A          GG  C   C

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

ath-miR160a-3p      GCGUAUGAGGAGCCAUGCAUA
ptc-miR160b-3p      GCGUAUGAGGAGCCAUGCAUA
ptc-miR160c-3p      GCGUAUGAGGAGCCAUGCAUA
csi-miR160a-3p      GCGUAUGAGGAGCCAUGCAUA
aly-miR160a-3p      GCGUAUGAGGAGCCAUGCAUA
cpa-miR160c-3p      GCGUAUGAGGAGCCAUGCAUA
cpa-miR160f-3p      GCGUAUGAGGAGCCAUGCAUA
stu-miR160a-3p      GCGUAUGAGGAGCCAAGCAUA
gma-miR160a-3p      GCGUAUGAGGAGCCAAGCAUA
csi-miR160b-3p      GCGUACGAGGAGCCAAGCAUA
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