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-miR4414a-5p

Organism

Medicago truncatula

Species

Mature miRNA Sequence(5'-3')

AGCUGCUGACUCGUUGGUUCA

miRBase

Precursor miRNA Sequence(5'-3')

GGCUGAGACUCAGCUGCUGACUCGUUGGUUCAAUAGCUCACAACAUGCAUAGUGUCAACGUGUGUGCUUCUGAUCCAACGAUGCGGGAGCUGCAUUCCAGUCGU

miRBase

Precursor miRNA Structure(5'-3') 

--     A  C -     G   AC       U   AU   U    -----    G 
  GGCUG GA U CAGCU CUG  UCGUUGG UCA  AGC CACA     ACAU C
  ||||| || | ||||| |||  ||||||| |||  ||| ||||     |||| A
  CUGAC CU A GUCGA GGC  AGCAACC AGU  UCG GUGU     UGUG G
UG     -  U C     G   GU       U   CU   U    GCAAC    A

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

mtr-miR4414a-5p      AGCUGCUGACUCGUUGGUUCA
csi-miR156j-5p       AGCUGCUGACUCGUUGGUUCA
gma-miR4414b         AGCUGCUGACUCGUUGGUUCG
gma-miR4414a-5p      AGCUGCUGACUCGUUGGCUC-
                     ***************** **