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-miR1509a-3p

Organism

Medicago truncatula

Species

Mature miRNA Sequence(5'-3')

ACCGGAUUUCCUUGAUUAAAG

miRBase

Precursor miRNA Sequence(5'-3')

CCCGGCCUCUCUCUUGCCUCAUAGCUAGUUAGGGUUUUCGUUGCUGUCUCGUGUUUUCUUUUGAUCCAUUCAAUUUUUUUAAUCUAGGAAAAUACGGUGGAGAGGGUUUUUCUUUUUAUUGUUUGAGAUUGAUAUCUCUCGUCUUCUCUACCGGAUUUCCUUGAUUAAAGAAAUUUACUGGUUCAUUAUUAUUUUUUAGCUAUGAUGACAAUGUGUAUCCCAGCUCAUUAUGAGGCCUUUUUGUAAGGUCUGGG

miRBase

Precursor miRNA Structure(5'-3') 

     -   CU --UCUU         CU    A    UUU   UGC    -    -   ------UUCUUU   U   UUC             U      AUA            UUUUUCUUUUUAUUGUUU     U 
CCCGG CCU  C      GCCUCAUAG  AGUU GGGU   CGU   UGUC UCGU GUU            UGA CCA   AAUUUUUUUAAUC AGGAAA   CGGUGGAGAGGG                  GAGAU G
||||| |||  |      |||||||||  |||| ||||   |||   |||| |||| |||            ||| |||   ||||||||||||| ||||||   ||||||||||||                  |||||  
GGGUC GGA  G      CGGAGUAUU  UCGA CCUA   GUA   ACAG AGUA CGA            ACU GGU   UUAAAGAAAUUAG UCCUUU   GCCAUCUCUUCU                  CUCUA A
     U   AU UUUUUC         AC    C    UGU   ---    U    U   UUUUUUAUUAUU   U   CAU             U      -AG            ---------------GCU     U

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

gma-miR1509a         --UUAAUCAAGGAAAUCACGGUCG
gma-miR1509b         --UUAAUCAAGGAAAUCACGGUU-
mtr-miR1509a-3p      ACCGGAUUUCCUUGAUUAAAG---
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