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

mtr-miR167b-3p

Organism

Medicago truncatula

Species

Mature miRNA Sequence(5'-3')

GAUCAUGUUGGAGCUUCACC

miRBase

Precursor miRNA Sequence(5'-3')

CAAUGACAGUUGAAGCUGCCAGCAUGAUCUGUGCUUUCCUUCCUGUGUAUAUACUUUAAUUUCCAGCUGAAUUUAAAUAUAACCAAAAAAAUAAAUAUGUUUGGUCUAAAUUUUGAUCAAACUUAUAUAUAUUUUUGCUUAUGUUUAAGUCUGGGGUGAGUUUAUUUGUGGUAAGAACAGAUCAUGUUGGAGCUUCACCUGUUAAAU

miRBase

Precursor miRNA Structure(5'-3') 

CAA      U       G              G   U  UUCCU   U  A    UUAAUUU    CUGA            C      A   A   U        UAA 
   UGACAG UGAAGCU CCAGCAUGAUCUGU CUU CC     GUG AU UACU       CCAG    AUUUAAAUAUAA CAAAAA AUA AUA GUUUGGUC   A
   |||||| ||||||| |||||||||||||| ||| ||     ||| || ||||       ||||    |||||||||||| |||||| ||| ||| ||||||||    
   AUUGUC ACUUCGA GGUUGUACUAGACA GAA GG     UAU UG GUGG       GGUC    UGAAUUUGUAUU GUUUUU UAU UAU CAAACUAG   U
UAA      C       -              A   U  -UGUU   U  A    -------    ----            C      A   A   U        UUU

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

mpo-miR-b3.0r1-8350      --CGGAUCAUG-UGG-AGACUCACC---
stu-miR167a-3p           ----GAUCAUG-UGGCAGCCUCACC---
csi-miR167d-3p           AUCGGAUCAUG-UGGUAGCUUCACC---
stu-miR167d-3p           ----GAUCAUG-UGGUUGCUUCACC---
mtr-miR167b-3p           ----GAUCAUG-UUGGAGCUUCACC---
ath-miR167c-3p           --UAGGUCAUGCUGGUAGUUUCACC---
stu-miR167b-3p           ----GAUCAUG-UGGCAGCAUCACC---
bol-miR167c              ------UGAAGCUGCCAGCAUGAUCUAU
mac-miR167a              ------UGAAGCUGCCAGCAUGAUCUGA
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