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-miR159b-5p

Organism

Citrus sinensis

Species

Mature miRNA Sequence(5'-3')

AGCUGCCGACUCAUUCAUUCA

miRBase

Precursor miRNA Sequence(5'-3')

AGUCCACUCAUGGAUGAGGCAAGGGUUUGGAUUAGCUGCCGACUCAUUCAUUCAAACACAGUAGAAAGAGGAGCAUUUUGGUUAUCCUAUUGUGAAUGUGUGAAUGAAGCGGGAGAUAAUAUUCAUCCUUUCUUUUCUGUGCUUGGACUG

miRBase

Precursor miRNA Structure(5'-3') 

-      CU      U    C      UUGG    G  G   AC        U  AA        AAA  G  G    
 AGUCCA  CAUGGA GAGG AAGGGU    AUUA CU CCG  UCAUUCAU CA  CACAGUAG   GA GA CAU 
 ||||||  |||||| |||| ||||||    |||| || |||  |||||||| ||  ||||||||   || || || U
 UCAGGU  GUGUCU UUCU UUCCUA    UAAU GA GGC  AGUAAGUG GU  GUGUUAUC   CU UU GUG 
G      UC      U    -      CUUA    A  G   GA        U  AA        ---  A  G

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

csi-miR159b-5p      -AGCUGCCGACUCAUUCAUUCA
osa-miR319a-5p      -AGCUGCCGAAUCAUCCAUUCA
ppe-miR319b         UAGCUGCCGAGUCAUUCAUCCA
smo-miR319          -UGCUGCCGACUCAUGCAUCC-
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