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

cpa-miR8155

Organism

Carica papaya

Species

Mature miRNA Sequence(5'-3')

UAACCUGGCUCUGAUACCA

miRBase

Precursor miRNA Sequence(5'-3')

GAUAUCAUCGGGUUCUUUGAGGGUAUGUUAAUUUUCUGGUCCCUUAAUAACCUGGCUCUGAUACCA

miRBase

Precursor miRNA Structure(5'-3') 

- A     ---       CU       -UAU UUA 
 G UAUCA   UCGGGUU  UUGAGGG    G   A
 | |||||   |||||||  |||||||    |    
 C AUAGU   GGUCCAA  AAUUCCC    C   U
A C     CUC       -U       UGGU UUU

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

bra-miR1511         -AACCUGGCUCUGAUACCAUGAAGU--
gma-miR1511         -AACCAGGCUCUGAUACCAUG------
cpa-miR8155         UAACCUGGCUCUGAUACCA--------
ppe-miR1511-3p      --ACCUGGCUCUGAUACCAUAAC----
mdm-miR1511         --ACCUAGCUCUGAUACCAUGAA----
fve-miR1511         --ACCUAGCUCUGAUACCAUGUG----
bdi-miR7782-3p      --ACCU-GCUCUGAUACCAUGUUGUGA
                      ***  ************