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

cre-miR1144a.2

Organism

Chlamydomonas reinhardtii

Species

Mature miRNA Sequence(5'-3')

UGGAACCGGGCACGCAGGAG

miRBase

Precursor miRNA Sequence(5'-3')

CGGCGGCGUUGGACUGCUGGGGUGCAGCAGGCUUGGAACCGGGCACGCAGGAGGUGGGUUUUGUGGCGGCAGGNAGCAGGCAGCGCGGGGCUGCUGGUGGUGGUGGAGGAGGAUGAAGUUCGCCAUUCAAACAACCCUUUCUGCACCGGUCCUGUGCUGCCCGUUGCCUGCAGGAGCAAAACACACCCACUCCGUGUCCGGCUCCAAGAUUGCUGAACCCCUGUCGCUGGCUGCUGCCG

miRBase

Precursor miRNA Structure(5'-3') 

       -     A U  U     G     GG      A         C  GA    G       GG G     N   A              GCU    G   U     --A GA    GUU 
CGGCGGC GUUGG C GC GGGGU CAGCA  CUUGGA CCGGGCACG AG  GGUG GUUUUGU  C GCAGG AGC GGCAGCGCGGGGCU   GGUG UGG GGAGG   G  UGAA   C
||||||| ||||| | || ||||| |||||  |||||| ||||||||| ||  |||| |||||||  | ||||| ||| ||||||||||||||   |||| ||| |||||   |  ||||    
GCCGUCG CGGUC G UG CCCCA GUCGU  GAACCU GGCCUGUGC UC  CCAC CAAAACG  G CGUCC UUG CCGUCGUGUCCUGG   CCAC GUC UUUCC   C  ACUU   C
       U     - C  U     A     UA      C         C  AC    A       AG A     G   C              ---    -   -     CAA AA    ACC

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

mac-miR528          UGGAAG-GGGCAUGCAGAGGAG-
zos-miRN4256        UGGAAG-GGGC-UGCAGAGGAGU
pha-miR528          UGGAAG-GGGCAUGCAGAGGAG-
pvi-miR528a         UGGAAG-GGGCAUGCAGAGGAG-
pvi-miR528b         UGGAAG-GGGCAUGCAGAGGAG-
pvi-miR528c         UGGAAG-GGGCAUGCAGAGGAG-
sit-miR528          UGGAAG-GGGCAUGCAGAGGAG-
spo-miR528          UGGAAG-GGGCAUGCAGAGGAG-
osa-miR528-5p       UGGAAG-GGGCAUGCAGAGGAG-
zma-miR528a-5p      UGGAAG-GGGCAUGCAGAGGAG-
zma-miR528b-5p      UGGAAG-GGGCAUGCAGAGGAG-
sbi-miR528          UGGAAG-GGGCAUGCAGAGGAG-
bdi-miR528-5p       UGGAAG-GGGCAUGCAGAGGAG-
cre-miR1144a.2      UGGAACCGGGCACGCAGGAG---
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