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

zma-miR2118d

Organism

Zea mays

Species

Mature miRNA Sequence(5'-3')

UUCCUGAUGCCUCCCAUGCCUA

miRBase

Precursor miRNA Sequence(5'-3')

GUGAGCAUGGAAGAGGAAGAGAGGGUCUAAGAGCAGUGGGCAUGGGAACACGGAGGAAGGCCUAUGAGUGGAAAGCUCAUUUUGGGUCUUCCUGAUGCCUCCCAUGCCUAUCGUUGUUAGGUGCUCCUUCCUCUUGCUUUUGGCUCAC

miRBase

Precursor miRNA Structure(5'-3') 

      ---AU G         A   G      G   A            ACACGG          ---      G 
GUGAGC     G AAGAGGAAG GAG GUCUAA AGC GUGGGCAUGGGA      AGGAAGGCCU   AUGAGU G
||||||     | ||||||||| ||| |||||| ||| ||||||||||||      ||||||||||   |||||| A
CACUCG     C UUCUCCUUC CUC UGGAUU UUG UAUCCGUACCCU      UCCUUCUGGG   UACUCG G
      GUUUU G         -   G      G   C            CCGUAG          UUU      A

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

zma-miR2118d        UUCCUGAUGCCUCCCAUGCCUA
sbi-miR2118-3p      UUCCUGAUGCCUCCCAUGCCUA
osa-miR2118o        CUCCUGAUGCCUCCCAAGCCUA
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