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

zos-miR169a

Organism

Zostera marina

Species

Mature miRNA Sequence(5'-3')

CAGCCAAGGAUGACUUGCCUA

PmiREN

Precursor miRNA Sequence(5'-3')

GAGAATGAGGTTTTATAATGCAGCCAAGGATGACTTGCCTATCGCATATACTTTTGCATCTTATTTTCTTACTTTCTTAAAAACTTATGCATTCCTATATACTTTGGGAGTTATTTTCCAATATATTAAGTTTATTAACAAGACAAAATGTTATTTGGAACTCGAGAGGAATGATTTGATATTTTGATGGGCAAGTCGTCTCTGGCTATATAATTACCTCATTTTTTCAT

PmiREN

Precursor miRNA Structure(5'-3') 

----           -U     AUGC     A                GCAUAUACUUUUGCAUCUUAUUUUCUUACUUUCUUAAAAACUUAUGCAUUCCUAUAUACUUUGGGAGUUA 
    GAGAAUGAGGU  UUAUA    AGCCA GGAUGACUUGCCUAUC                                                                      U
    |||||||||||  |||||    ||||| ||||||||||||||||                                                                       
    UUUUUACUCCA  AAUAU    UCGGU UCUGCUGAACGGGUAG                                                                      U
UACU           UU     ---A     C                UUUUAUAGUUUAGUAAGGAGAGCUCAAGGUUUAUUGUAAAACAGAACAAUUAUUUGAAUUAUAUAACCUU

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

sbi-miR169q         -UAGCCAAGAAUGGCUUGCCUA
bdi-miR169j-5p      -UAGCCAGGAAUGGCUUGCCUA
sbi-miR169p         -UAGCCAAGAAUGGCUUGCCUA
zma-miR169q-5p      -UAGCCAAGAAUGGCUUGCCUA
zma-miR169n-5p      -UAGCCAAGAAUGGCUUGCCUA
zma-miR169m-5p      -UAGCCAAGAAUGGCUUGCCUA
bdi-miR169i         CCAGCCAAGAAUGGCUUGCCUA
zos-miR169a         -CAGCCAAGGAUGACUUGCCUA
zos-miR169b         -CAGCCAAGGAUGACUUGCCUA
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