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-miR169j

Organism

Theobroma cacao

Species

Mature miRNA Sequence(5'-3')

UAGCCAAGGAUGACUUGCCUG

miRBase

Precursor miRNA Sequence(5'-3')

AGAUAAAGAGUCUUGUUUGAUAGCCAAGGAUGACUUGCCUGUACCUCACAGCAGGUUUCUCUUAGGUUAAAAGUUCUUCCUUGGAAGCCCCUGUCUAGUUUCAGGCAAUUAUCCUUGGCUAACCUGACAGGCUCUUCUCUA

miRBase

Precursor miRNA Structure(5'-3') 

-   UA        U   -U A             C       -U  CUC    CA       CUU   UUAAA 
 AGA  AAGAGUCU GUU  G UAGCCAAGGAUGA UUGCCUG  AC   ACAG  GGUUUCU   AGG     A
 |||  |||||||| |||  | ||||||||||||| |||||||  ||   ||||  |||||||   |||      
 UCU  UUCUCGGA CAG  C AUCGGUUCCUAUU AACGGAC  UG   UGUC  CCGAAGG   UCC     U
A   -C        -   UC A             -       UU  AUC    -C       --U   UUCUU

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

pha-miR169c           UAGCCAAGGAUGAUU--UGCCUG-
osa-miR169r-5p        UAGCCAAGGAUGAUU--UGCCUG-
sbi-miR169o           UAGCCAAGGAUGAUU--UGCCUG-
mdm-miR169b           UAGCCAAGGAUGAUU--UGCCUGC
zma-miR169l-5p        UAGCCAGGGAUGAUU--UGCCUG-
ptc-miR169y           UAGCCAUGGAUGAAU--UGCCUG-
tcc-miR169i           UAGCCAAGGAUGAGU--UGCCUG-
mdm-miR169m           UAGCCAAGGAUGACU--UGCCUG-
mdm-miR169n           UAGCCAAGGAUGACU--UGCCUG-
mdm-miR169l           UAGCCAAGGAUGACU--UGCCUG-
mdm-miR169k           UAGCCAAGGAUGACU--UGCCUG-
mes-miR169aa          UAGCCAAGGAUGACU--UGCCUG-
mes-miR169y           UAGCCAAGGAUGACU--UGCCUG-
mes-miR169w           UAGCCAAGGAUGACU--UGCCUG-
mes-miR169u           UAGCCAAGGAUGACU--UGCCUG-
mes-miR169s           UAGCCAAGGAUGACU--UGCCUG-
mes-miR169q           UAGCCAAGGAUGACU--UGCCUG-
mes-miR169p           UAGCCAAGGAUGACU--UGCCUG-
mes-miR169o           UAGCCAAGGAUGACU--UGCCUG-
lus-miR169k           UAGCCAAGGAUGACU--UGCCUG-
lus-miR169c           UAGCCAAGGAUGACU--UGCCUG-
lus-miR169b           UAGCCAAGGAUGACU--UGCCUG-
bdi-miR169e-5p        UAGCCAAGGAUGACU--UGCCUG-
bdi-miR169g           UAGCCAAGGAUGACU--UGCCUG-
tcc-miR169j           UAGCCAAGGAUGACU--UGCCUG-
tcc-miR169h           UAGCCAAGGAUGACU--UGCCUG-
aly-miR169m-5p        UAGCCAAGGAUGACU--UGCCUG-
aly-miR169l-5p        UAGCCAAGGAUGACU--UGCCUG-
aly-miR169k-5p        UAGCCAAGGAUGACU--UGCCUG-
aly-miR169j-5p        UAGCCAAGGAUGACU--UGCCUG-
aly-miR169i-5p        UAGCCAAGGAUGACU--UGCCUG-
aly-miR169h-5p        UAGCCAAGGAUGACU--UGCCUG-
sbi-miR169l           UAGCCAAGGAUGACU--UGCCUG-
sly-miR169b           UAGCCAAGGAUGACU--UGCCUG-
ptc-miR169m           UAGCCAAGGAUGACU--UGCCUG-
ptc-miR169l           UAGCCAAGGAUGACU--UGCCUG-
ptc-miR169k           UAGCCAAGGAUGACU--UGCCUG-
ptc-miR169j           UAGCCAAGGAUGACU--UGCCUG-
ptc-miR169i           UAGCCAAGGAUGACU--UGCCUG-
zma-miR169j-5p        UAGCCAAGGAUGACU--UGCCUG-
zma-miR169k-5p        UAGCCAAGGAUGACU--UGCCUG-
zma-miR169i-5p        UAGCCAAGGAUGACU--UGCCUG-
sbi-miR169g           UAGCCAAGGAUGACU--UGCCUG-
sbi-miR169f           UAGCCAAGGAUGACU--UGCCUG-
osa-miR169m           UAGCCAAGGAUGACU--UGCCUG-
osa-miR169l           UAGCCAAGGAUGACU--UGCCUG-
osa-miR169k           UAGCCAAGGAUGACU--UGCCUG-
osa-miR169j           UAGCCAAGGAUGACU--UGCCUG-
osa-miR169i-5p.1      UAGCCAAGGAUGACU--UGCCUG-
osa-miR169h           UAGCCAAGGAUGACU--UGCCUG-
ath-miR169n           UAGCCAAGGAUGACU--UGCCUG-
ath-miR169m           UAGCCAAGGAUGACU--UGCCUG-
ath-miR169l           UAGCCAAGGAUGACU--UGCCUG-
ath-miR169k           UAGCCAAGGAUGACU--UGCCUG-
ath-miR169j           UAGCCAAGGAUGACU--UGCCUG-
ath-miR169i           UAGCCAAGGAUGACU--UGCCUG-
ath-miR169h           UAGCCAAGGAUGACU--UGCCUG-
sit-miR169n           UAGCCAAGGAUGACU--UGCCUG-
sit-miR169m           UAGCCAAGGAUGACU--UGCCUG-
sit-miR169l           UAGCCAAGGAUGACU--UGCCUG-
sit-miR169j           UAGCCAAGGAUGACU--UGCCUG-
sit-miR169i           UAGCCAAGGAUGACU--UGCCUG-
sit-miR169h           UAGCCAAGGAUGACU--UGCCUG-
sit-miR169g           UAGCCAAGGAUGACU--UGCCUG-
mac-miR169p           UAGCCAAGGAUGACU--UGCCUG-
mac-miR169o           UAGCCAAGGAUGACU--UGCCUG-
esa-miR169d           UAGCCAAGGAUGACU--UGCCUG-
bra-miR169x           UAGCCAAGGAUGACU--UGCCUG-
bra-miR169p           UAGCCAAGGAUGACU--UGCCUG-
bra-miR169o           UAGCCAAGGAUGACU--UGCCUG-
bra-miR169n           UAGCCAAGGAUGACU--UGCCUG-
bra-miR169m           UAGCCAAGGAUGACU--UGCCUG-
bra-miR169f           UAGCCAAGGAUGACU--UGCCUG-
bra-miR169e           UAGCCAAGGAUGACU--UGCCUG-
aly-miR169n-5p        UAGCCAAAGAUGACU--UGCCUG-
ptc-miR169q           UAGCCAAGGACGACU--UGCCUG-
ppe-miR169j           UAGCCAAGGAUGACU--UGCCUGC
ppe-miR169i           UAGCCAAGGAUGACU--UGCCUGC
ppe-miR169h           UAGCCAAGGAUGACU--UGCCUGC
ppe-miR169g           UAGCCAAGGAUGACU--UGCCUGC
ppe-miR169f           UAGCCAAGGAUGACU--UGCCUGC
zma-miR169l-3p        -GGCAAAUCAUCCCUGCUACC---
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