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

pvi-miR1432b

Organism

Panicum virgatum

Species

Mature miRNA Sequence(5'-3')

UCAGGAGAGAUGACACCGAC

PmiREN

Precursor miRNA Sequence(5'-3')

TGTGGGTGTGCGTCCTAAGCTCAGGAGAGATGACACCGACGTCGGACGGGTCGACCGAGATGTGCATCTGCTGCGTCGCTCGATCCGTCTGAAGCCGGTGTCATTTCCCCTGAACTTAGGACCCATTAGCCCTGA

PmiREN

Precursor miRNA Structure(5'-3') 

UGU    --   C        C     A            A G             CCGA     -  A 
   GGGU  GUG GUCCUAAG UCAGG GAGAUGACACCG C UCGGACGGGUCGA    GAUGU GC U
   ||||  ||| |||||||| ||||| |||||||||||| | |||||||||||||    ||||| ||  
   CCCG  UAC CAGGAUUC AGUCC CUUUACUGUGGC G AGUCUGCCUAGCU    CUGCG CG G
AGU    AU   C        A     C            C A             --CG     U  U

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

pvi-miR1432b        -UCAGGAGAGAUGACACCGAC-
bdi-miR1432         UUCAGGAGAGAUGACACCGACA
osa-miR1432-5p      AUCAGGAGAGAUGACACCGAC-
sit-miR1432         -UCAGGAGAGAUGACACCGAC-
zma-miR1432-5p      CUCAGGAGAGAUGACACCGAC-
sbi-miR1432         CUCAGGAGAGAUGACACCGAC-
pvi-miR1432a        CUCAGGAGAGAUGACACCGAUG
                     *******************