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

tae-miR444b

Organism

Triticum aestivum

Species

Mature miRNA Sequence(5'-3')

UUGCUGCCUCAAGCUUGCUGC

miRBase

Precursor miRNA Sequence(5'-3')

GAUAUGCAUGUGGCGGCACCGAGCAUGAGGCAACAACUGCAUUACUUGCGGGGAAGGCGCAAGUAGGACACCUGCAUUACUUGCAAACAAGGCGCACCAUACUUGUGGCUUUCUUGCAAGUCGUGCAGUUGCUGCCUCAAGCUUGCUGCCUCCACAUGUAUA

miRBase

Precursor miRNA Structure(5'-3') 

GA           C    C     A       A         U             G        -  -A A   -----   U 
  UAUGCAUGUGG GGCA CGAGC UGAGGCA CAACUGCAU ACUUGCGGGGAAG CGCAAGUA GG  C CCU     GCA U
  ||||||||||| |||| ||||| ||||||| ||||||||| ||||||||||||| |||||||| ||  | |||     ||| A
  AUAUGUACACC CCGU GUUCG ACUCCGU GUUGACGUG UGAACGUUCUUUC GUGUUCAU CC  G GGA     CGU U
--           U    C     A       C         C             G        A  AC C   ACAAA   U

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
                       ** ** **************