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-miR156j-3p

Organism

Oryza sativa

Species

Mature miRNA Sequence(5'-3')

GCUCGCUCCUCUUUCUGUCAGC

miRBase

Precursor miRNA Sequence(5'-3')

UUGGGGCGGGGCGGGAUCGAGCAUAUGAAAGGCGAGAUUGUUGACAGAAGAGAGUGAGCACACGGCGCGGCGGCUAGCCAUCGGCGGGAUGCCUGCCCCCGCCGCGUGCUCGCUCCUCUUUCUGUCAGCAUCUCUCAUCACUCCCUCCCGCAUCCCCCGCCCCGA

miRBase

Precursor miRNA Structure(5'-3') 

          ----      UC   CAU    AAGGC     U          -   -         A     C  C   U  C    G 
UUGGGGCGGG    GCGGGA  GAG   AUGA     GAGAU GUUGACAGAA GAG AGUGAGCAC CGGCG GG GGC AG CAUC G
||||||||||    ||||||  |||   ||||     ||||| |||||||||| ||| ||||||||| ||||| || ||| || |||| C
AGCCCCGCCC    CGCCCU  CUC   UACU     CUCUA CGACUGUCUU CUC UCGCUCGUG GCCGC CC CCG UC GUAG G
          CCUA      CC   -AC    -----     -          U   C         C     -  -   -  C    G

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

osa-miR156j-3p      -GCUCGCUCCUCUUUCUGUCAGC
csi-miR156a-3p      UGCUCGCUCCUCUU-CUGUCAGC
zma-miR156k-3p      -GCUCGCUUCUCUUUCUGUCAGC
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