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

tcc-miR2111

Organism

Theobroma cacao

Species

Mature miRNA Sequence(5'-3')

UAAUCUGCAUCCUGAGGUUUA

miRBase

Precursor miRNA Sequence(5'-3')

AAAUAUUGGUAAGGACCGGGUAAUCUGCAUCCUGAGGUUUAGAUCUACAUGUAAUACUUGUUGCAUCUAGCCCUCGGGAGUGCAGAUUACCUCUUCCUCACUGGCAAUACA

miRBase

Precursor miRNA Structure(5'-3') 

AAA     G  ---    CC            -        U      - U   U    
   UAUUG UA   AGGA  GGGUAAUCUGCA UCCUGAGG UUAGAU C ACA GUA 
   ||||| ||   ||||  |||||||||||| |||||||| |||||| | ||| || A
   AUAAC GU   UCCU  UCCAUUAGACGU AGGGCUCC GAUCUA G UGU CAC 
-AC     G  CAC    UC            G        C      C U   U

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

fve-miR2111a         UAAUCUGCAUCCUGAGGUUU-
fve-miR2111b-5p      UAAUCUGCAUCCUGAGGUUU-
fve-miR2111c         UAAUCUGCAUCCUGAGGUUU-
ppe-miR2111d         UAAUCUGCAUCCUGAGGUUUA
ppe-miR2111c         UAAUCUGCAUCCUGAGGUUUA
ppe-miR2111b         UAAUCUGCAUCCUGAGGUUUA
ppe-miR2111a         UAAUCUGCAUCCUGAGGUUUA
aly-miR2111c-5p      UAAUCUGCAUCCUGAGGUUUA
mes-miR2111b         UAAUCUGCAUCCUGAGGUUUA
mes-miR2111a         UAAUCUGCAUCCUGAGGUUUA
mdm-miR2111b         UAAUCUGCAUCCUGAGGUUUA
mdm-miR2111a         UAAUCUGCAUCCUGAGGUUUA
gma-miR2111f         UAAUCUGCAUCCUGAGGUUUA
gma-miR2111e         UAAUCUGCAUCCUGAGGUUUA
gma-miR2111c         UAAUCUGCAUCCUGAGGUUUA
gma-miR2111b         UAAUCUGCAUCCUGAGGUUUA
mtr-miR2111a-5p      UAAUCUGCAUCCUGAGGUUUA
mtr-miR2111f         UAAUCUGCAUCCUGAGGUUUA
tcc-miR2111          UAAUCUGCAUCCUGAGGUUUA
vvi-miR2111-5p       UAAUCUGCAUCCUGAGGUCUA
                     ****************** *