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

csi-miR399a-5p

Organism

Citrus sinensis

Species

Mature miRNA Sequence(5'-3')

GGGCAACAUCUCCAUUGGCAGG

miRBase

Precursor miRNA Sequence(5'-3')

CAUUGAGGUGCAUGCAUGCAGUUGCAUAUUACAGGGCAACAUCUCCAUUGGCAGGCUGCAUACUUAUUACAUCCAUCUCAUAUAUACGUAUGUUCUUCAGUCAGUGUGCCUUCUGCCAAAGGAGAUUUGCCCGGCAAUUCCUCUGCAUUUAUUUU

miRBase

Precursor miRNA Structure(5'-3') 

CAUUGAGGUGCAUGCAUGCAGUUGCAUAUUACA      C      A        CU       U   ACAUCCAUCU     A 
                                 GGGCAA AUCUCC UUGGCAGG  GCAUACU AUU          CAUAU U
                                 |||||| |||||| ||||||||  ||||||| |||          |||||  
                                 CCCGUU UAGAGG AACCGUCU  CGUGUGA UGA          GUAUG G
----------UUUUAUUUACGUCUCCUUAACGG      -      A        UC       C   ----CUUCUU     C

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

aly-miR399h-5p      GGGCAAGAUCUCUAUUGGCAGG
csi-miR399a-5p      GGGCAACAUCUCCAUUGGCAGG
aly-miR399f-5p      GGGCAAGAUCACCAUUGGCAGA
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