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

mdm-miR10996b

Organism

Malus domestica

Species

Mature miRNA Sequence(5'-3')

UCACCAUUGCAUCUCAUGUUCC

miRBase

Precursor miRNA Sequence(5'-3')

CUCUCGAGAAGAGCUAACUUGUAACUGAGAUGCCAAGGUGAUAGUAUUUCAAACUAAUCAUGUUAUUAUGUUGAAAAGUUGAAACAUAAUGGUGUCUGACGGGCUUGGAAUGCCAUCACCAUUGCAUCUCAUGUUCCAUGUAAGUUAAUCUCAUCU

miRBase

Precursor miRNA Structure(5'-3') 

CUCUC    AG    A  U  U   -        CAA      A         A  AA   --UG          GAAA 
     GAGA  AGCU AC UG AAC UGAGAUGC   GGUGAU GUAUUUCAA CU  UCA    UUAUUAUGUU    A
     ||||  |||| || || ||| ||||||||   |||||| ||||||||| ||  |||    ||||||||||     
     CUCU  UUGA UG AC UUG ACUCUACG   CCACUA CGUAAGGUU GG  AGU    GGUAAUACAA    U
-UCUA    AA    A  U  C   U        UUA      C         C  GC   CUGU          AGUU

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

mtr-miR2592bm-3p      GGAAAACAU-GAAUGUCGGGUG--
mtr-miR2592bn-3p      GGAAAACAU-GAAUGUCGGGUG--
mdm-miR10996a         --ACACCAUCGCAUCUCAUGUUCC
mdm-miR10996b         --UCACCAUUGCAUCUCAUGUUCC
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