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-miR169d-3p

Organism

Medicago truncatula

Species

Mature miRNA Sequence(5'-3')

GGCAGGUCAUCCUUCGGCUAUA

miRBase

Precursor miRNA Sequence(5'-3')

AGAUGAAGCCAAGGAUGACUUGCCGGUAUAAUAGUAAUUUGCCACAAAUCUAGAUAGCUAUUAGCUAUGUUUGGAUGGGCGGUGAGAUUAACAAAAUUACAGCAGCAUUGUGAUUUUGUUGAUGCUUUAAAGUGUAGUUUUUAUCAAAAUUACAGUGGUUCACUGUAAUUAUGAGAAUCUCACCGUCAAUCUAAAUAUGCAUUUAGUUUCAUUUCCGGCAGGUCAUCCUUCGGCUAUAUU

miRBase

Precursor miRNA Structure(5'-3') 

AGAUGAAGCCAAGGAUGACUUGCCGGUAUAAUAGUAAUUUGCCACAAAUCUAGAUAGCUAUUA  U          G            AA  A        --C G             U   -U   UUA 
                                                               GC AUGUUUGGAU GGCGGUGAGAUU  CA AAUUACAG   A CAUUGUGAUUUUG UGA  GCU   A
                                                               || |||||||||| ||||||||||||  || ||||||||   | ||||||||||||| |||  |||   A
                                                               CG UAUAAAUCUA CUGCCACUCUAA  GU UUAAUGUC   U GUGACAUUAAAAC AUU  UGA   G
-----------------------UUAUAUCGGCUUCCUACUGGACGGCCUUUACUUUGAUUUA  -          A            GA  A        ACU G             U   UU   UGU

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

aly-miR169k-3p      GGCAGUCU---CCUUGGCUAUC
aly-miR169l-3p      GGCAGUCU---CCUUGGCUAUC
aly-miR169j-3p      GGCAGUCU---CCUUGGCUAUC
aly-miR169h-3p      GGCAGUCU---CCUUGGCUAUU
stu-miR169a-3p      -GCAGUCU---CCUUGGCUACU
stu-miR169b-3p      -GCAGUCU---CCUUGGCUACU
stu-miR169c-3p      -GCAGUCU---CCUUGGCUACC
mtr-miR169d-3p      GGCAGGUCAUCCUUCGGCUAUA
mtr-miR169e-3p      GGCAGGUCAUCCUUCGGCUAUA
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