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-miR408-5p

Organism

Oryza sativa

Species

Mature miRNA Sequence(5'-3')

CAGGGAUGAGGCAGAGCAUGG

miRBase

Precursor miRNA Sequence(5'-3')

GGGAGUUCUGUGAUUGGAGAGGAGAGGAGACAGGGAUGAGGCAGAGCAUGGGAUGGGGCUAUCAACAGAUGUAGAUUAUUCCUUGCACAAGAGAUGAUGAUGAGCUGUGAAUGAGUUCUGAGAGAUGGCUGGUGUUGUUGUUGCUCCCUCCCCUGCACUGCCUCUUCCCUGGCUCCCCUGCACACCUCUCUCUCUCUCUCUCUCUCUCUGUGU

miRBase

Precursor miRNA Structure(5'-3') 

-----     UUCUGUGAUU      -     -    CAGGGAUGAGGCAGAGCAUGGGAUGGGGCUAUCAACAGAUGUAGAUUAUUCCUUGCACAAGAGAUGAUGAUGAGCUG 
     GGGAG          GGAGAG GAGAG GAGA                                                                             U
     |||||          |||||| ||||| ||||                                                                              
     CUCUC          UCUCUC CUCUC CUCU                                                                             A
UGUGU     ----------      U     U    CCACACGUCCCCUCGGUCCCUUCUCCGUCACGUCCCCUCCCUCGUUGUUGUUGUGGUCGGUAGAGAGUCUUGAGUAA

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

zma-miR408b-5p      -CAGGGACGAGGCAGAGCAUGG
stu-miR408a-5p      ACAGGGACGAGGCAGCGCAUG-
osa-miR408-5p       -CAGGGAUGAGGCAGAGCAUGG
bdi-miR408-5p       -CAGGGAUGGAGCAGAGCAUGG
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