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

ppt-miR414

Organism

Physcomitrella patens

Species

Mature miRNA Sequence(5'-3')

UCAUCCUCAUCAUCCUCGUCC

miRBase

Precursor miRNA Sequence(5'-3')

AGACGUUCAAGAACAAUUAGAGAAGACCAAUGCUAGAAUGUGGGGCUCACCAGAUUUUCCAACUGCAUUGGCUAGCUCUGCUAGCGCUUUGGCAGUAACCAUAUCUUUGUCAUCUUCAUCAUCGUCAUCUUCGUCAUCAUCUUCGUCAUCCUCAUCAUCCUCGUCCUCAGCAUCAG

miRBase

Precursor miRNA Structure(5'-3') 

----------------------------A    UUC    -ACAAUUA    A   CAAUGCUAGAAUGUGGGGCUCACCAGAUUUUCCAACUGCAUUGGCUA 
                             GACG   AAGA        GAGA GAC                                               G
                             ||||   ||||        |||| |||                                                
                             CUGC   UUCU        UUCU CUG                                               C
GACUACGACUCCUGCUCCUACUACUCCUA    ---    ACUACUGC    A   CUACUACUUCUACUGUUUCUAUACCAAUGACGGUUUCGCGAUCGUCU

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

osa-miR414      UCAUCCUCAUCAUCAUCGUCC
ppt-miR414      UCAUCCUCAUCAUCCUCGUCC
ath-miR414      UCAUCUUCAUCAUCAUCGUCA
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