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-miR156e-3p

Organism

Zea mays

Species

Mature miRNA Sequence(5'-3')

GCUCACUGCUCUCUCUGUCAUC

miRBase

Precursor miRNA Sequence(5'-3')

CCGGCGGGCGCGCGCGCGGUGACAGAAGAGAGUGAGCACACGGCCGGUGUGACGGCACCGGCGCGGAUGUGCCGUCGCGGCCGCGUGCUCACUGCUCUCUCUGUCAUCCGCUGGCACACCCUCACG

miRBase

Precursor miRNA Structure(5'-3') 

C  - C   C C  GC    -       -    -         A     GGU         ---     
 CG G GGG G GC  GCGG UGACAGA AGAG AGUGAGCAC CGGCC   GUGACGGCA   CCGG 
 || | ||| | ||  |||| ||||||| |||| ||||||||| |||||   |||||||||   ||| C
 GC C CCC C CG  CGCC ACUGUCU UCUC UCACUCGUG GCCGG   CGCUGCCGU   GGCG 
-  A U   A A  GU    U       C    G         C     ---         GUA

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

zma-miR156j-3p      UGCUCUCUGCUCUCACUGUCAUC
zma-miR156e-3p      -GCUCACUGCUCUCUCUGUCAUC
bdi-miR156h-3p      -GCUCACUGCUCUUCCUGUCAUC
csi-miR156f-5p      --AUGACAGAAGAGAGAGAGUAC
                       *  * *        *    *