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

csi-miR3627b-3p

Organism

Citrus sinensis

Species

Mature miRNA Sequence(5'-3')

UUGUCGCAGGAGCGUUGGCACC

miRBase

Precursor miRNA Sequence(5'-3')

GGGUCAUAAGCAGGAGACAUACGCAACAACGACAGAGCUUAAUUAGCACAAAAGUGAGGAAAAAUUAUAAAGGAAAGUAAUCGAAGCCAAGCCAAGGCCUGCAUGAAUUUUAAGGCAAGCACAUGCUAGAAAAAGAAAUUAAAAGAAGUUCAGGGGCUCUUGUCGCAGGAGCGUUGGCACCUGCACCGGCCACCGUGUGUAUGUGGUGUCGCAAGUGCCAGCAUCCUGUGACAAGAAGCCCUAAAACUUCUUCGCUCACAUUUUU

miRBase

Precursor miRNA Structure(5'-3') 

GGGUCAUAAGCAGGAGACAUACGCAACAACGACAGAGCUUAAUUAGCACAAAAGUGAGGAAAAAUUAUAAAGGAAAGUAAUCGAAGCCAAGCCAAGGCCUGCAUGAAUUUUAAGGCAAGCACAUGCUAGAAAAAGAAAUUAA        CA      -            GC        C   ACCG     CGU 
                                                                                                                                              AAGAAGUU  GGGGCU CUUGUCGCAGGA  GUUGGCAC UGC    GCCAC   G
                                                                                                                                              ||||||||  |||||| ||||||||||||  |||||||| |||    |||||   U
                                                                                                                                              UUCUUCAA  UCCCGA GAACAGUGUCCU  CGACCGUG ACG    UGGUG   A
---------------------------------------------------------------------------------------------------------------------------------UUUUUACACUCGC        AA      A            -A        A   -CUG     UAU

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

mes-miR3627          UUGUCGCAGGAGCGGUGGCACC
csi-miR3627b-3p      UUGUCGCAGGAGCGUUGGCACC
                     ************** *******