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

spo-miR528

Organism

Spirodela polyrhiza

Species

Mature miRNA Sequence(5'-3')

UGGAAGGGGCAUGCAGAGGAG

PmiREN

Precursor miRNA Sequence(5'-3')

CTCTGAGGCGGCCGCAGCAGTGGAAGGGGCATGCAGAGGAGAGCGCCACCGGCGGCGCCGCCCACCAGCGGCGGCGCTCCGCCCACCGCTGGCTTCCTCCTCCTCTGCCCTCCCCATCCACGGCTGCAGCCGCCGCTGTGCG

PmiREN

Precursor miRNA Structure(5'-3') 

--CUCUGA      C     A     A    CAU         -  --C    C ----    --        - A 
        GGCGGC GCAGC GUGGA GGGG   GCAGAGGAG AG   GCCA C    GGCG  GCGCCGCC C C
        |||||| ||||| ||||| ||||   ||||||||| ||   |||| |    ||||  |||||||| |  
        CCGCCG CGUCG CACCU CCCC   CGUCUCCUC UC   CGGU G    CCGC  CGCGGCGG G G
GCGUGUCG      A     G     A    UCC         C  CUU    C CCAC    CU        C A

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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