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

sbi-miR821d

Organism

Sorghum bicolor

Species

Mature miRNA Sequence(5'-3')

AAGUCAUCAACAACAAAGUUG

miRBase

Precursor miRNA Sequence(5'-3')

AAAAAGUCAUCAACAACAAAGUUGUAGAAAUCAUUAAUAUCUAAAACUUUUAUUUUGGUCAUUUAUCCAUUCGAUAAAGUGAUAGCAACAUUGUUCAUAAAUUUUACAAAUCCCUCGUAUGGUUUCAUAAACUAUAAGAGAGAUAUGUAAAUUUUGUGAACAAUAUUACUAUCACUUUCUCGGAUGAACAAAUACCUAAAAUAAAAGUUGUAUAUAUUGAUGAGUUCUACAACUUUUAUGUUCAUGAAUUUUUCGAAUGAAAUC

miRBase

Precursor miRNA Structure(5'-3') 

-----------     G    C    AC            A          C  A            -   C    AUC       U          C  C            U      A   C   G          
           AAAAA UCAU AACA  AAAGUUGUAGAA UCAUUAAUAU UA AACUUUUAUUUU GGU AUUU   CAUUCGA AAAGUGAUAG AA AUUGUUCAUAAA UUUACA AUC CUC UAUGGUUUC 
           ||||| |||| ||||  |||||||||||| |||||||||| || |||||||||||| ||| ||||   ||||||| |||||||||| || |||||||||||| |||||| ||| ||| |||||||| A
           UUUUU AGUA UUGU  UUUCAACAUCUU AGUAGUUAUA AU UUGAAAAUAAAA CCA UAAA   GUAGGCU UUUCACUAUC UU UAACAAGUGUUU AAAUGU UAG GAG AUAUCAAAA 
CUAAAGUAAGC     A    C    AU            G          U  G            U   -    CAA       C          A  A            U      A   A   A

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

sbi-miR821a      AAGUCAUCAACAUAAAAGUUG---
sbi-miR821e      AAGUCAUCAAAAUAAAAGUUG---
sbi-miR821b      AAGUUAUGAACAUAAAAGUUG---
osa-miR821a      AAGUCAUCAACAAAAAAGUUGAAU
sbi-miR821d      AAGUCAUCAACAACAAAGUUG---
osa-miR821b      AAGUCAUCAACAAAAAAGUUGAAU
osa-miR821c      AAGUCAUCAACAAAAAAGUUGAAU
sbi-miR821c      AAGUCAUCAACAUAAAAGUUG---
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