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

osa-miR2118e

Organism

Oryza sativa

Species

Mature miRNA Sequence(5'-3')

UUCCCAAUGCCUCCCAUGCCUA

miRBase

Precursor miRNA Sequence(5'-3')

AGUGAGUCAGGAAGAGGAAGAAAAGAGAGUCUAAGAGCAGCAGGCAUGGGAACAUGGAGGAAAAAACAUAUAUAGUUUUCUUCCCCUCUAAAGUUAGAGGUUGAAAUUUGCUGUGUGUUUUUCCCAAUGCCUCCCAUGCCUACAGUUCUUAGGCACUCCUUCCACUUCCUGUUGGCU

miRBase

Precursor miRNA Structure(5'-3') 

   G  U       A     AAAA   A          A C          -A   G A       A      -   U    UUCC      A 
AGU AG CAGGAAG GGAAG    GAG GUCUAAGAGC G AGGCAUGGGA  CAU G GGAAAAA CAUAUA UAG UUUC    CCUCUA A
||| || ||||||| |||||    ||| |||||||||| | ||||||||||  ||| | ||||||| |||||| ||| ||||    ||||||  
UCG UU GUCCUUC CCUUC    CUC CGGAUUCUUG C UCCGUACCCU  GUA C CCUUUUU GUGUGU GUU AAAG    GGAGAU U
   G  -       A     ----   A          A A          CC   A -       -      C   U    --UU      U

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

osa-miR2118e        -UUCCCAAUGCCUCCCAUGCCUA
zma-miR2118f        -UUCCCAAUGCCUUCCAUGCCUA
osa-miR2118r        -UUCCCAAUGCCUCCCAUGCCUA
mac-miR482b         -UUUCCAAUACCUCCCAUGCCAA
ptc-miR482b-3p      -UUACCAAUACCUCUCAUGCCAA
stu-miR482c         -UUUCCUAUUCCACCCAUGCCAA
sly-miR482d-3p      -UUUCCUAUUCCACCCAUGCCAA
ppe-miR482e         -UUGCCUAUUCCUCCCAUGCCAA
mac-miR482a         -UUUCCAAUGCCUCCCAUGCCAA
ptc-miR1448         CUUUCCAACGCCUCCCAUAC---
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