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-miR444d.1

Organism

Oryza sativa

Species

Mature miRNA Sequence(5'-3')

UUGCUGCCUCAAGCUUGCUGC

miRBase

Precursor miRNA Sequence(5'-3')

AGUUAUUGCACAUGGUGGCACCAAGCAUGAGGCAACAACUGCAUUACUUGCAAGAAAGGCACAAAAUCAUUAGAUGAUUACUUGUGGCUUUCUUGCAAGUUGUGCAGUUGCUGCCUCAAGCUUGCUGCCUCCCUCUGCCAAAU

miRBase

Precursor miRNA Structure(5'-3') 

AGUUAUU   CAU  U    C     A       A         U             G     --        
       GCA   GG GGCA CAAGC UGAGGCA CAACUGCAU ACUUGCAAGAAAG CACAA  AAUCAUU 
       |||   || |||| ||||| ||||||| ||||||||| ||||||||||||| |||||  |||||| A
       CGU   CC CCGU GUUCG ACUCCGU GUUGACGUG UGAACGUUCUUUC GUGUU  UUAGUAU 
--UAAAC   CUC  U    C     A       C         U             G     CA

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

tae-miR444a           UUGCUGCCUCAAGCUUGCUGC-
tae-miR444b           UUGCUGCCUCAAGCUUGCUGC-
hvu-miR444a           UUGCUGCCUCAAGCUUGCUGC-
osa-miR444a-3p.1      UUGCUGCCUCAAGCUUGCUGC-
osa-miR444d.1         UUGCUGCCUCAAGCUUGCUGC-
bdi-miR444a           UUGCUGCCUCAAGCUUGCUGC-
osa-miR444b.1         -UGUUGUCUCAAGCUUGCUGCC
osa-miR444c.1         -UGUUGUCUCAAGCUUGCUGCC
                       ** ** **************