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-miR1030a

Organism

Physcomitrella patens

Species

Mature miRNA Sequence(5'-3')

UCUGCAUCUGCACCUGCACCA

miRBase

Precursor miRNA Sequence(5'-3')

AAGGUACGCAAUUAAAGCUGCACCGUCACAUUUCUGCAUCUGCACCUGCACCAAAACGCGACUUUGAGGUUGUGAUGGAAUUCUGCAGUCACACCCAGCCAUUUGCAAGAGUGUUCUGCCGGUGUUGGAUUGUGGCAAUGGAUUGCAUUCACAGGCUUGUGUACUGGUGCAGUGCUUAUGCAGAAAUGUUGCGUUGUAGCUCAAACUGGAUUGAG

miRBase

Precursor miRNA Structure(5'-3') 

AAGGUACG     -----AA       C   C            CU    C       AA    GACUUU   G      -  G     UGCA      -C     C   U   A  G 
        CAAUU       AGCUGCA CGU ACAUUUCUGCAU  GCAC UGCACCA  ACGC      GAG UUGUGA UG AAUUC    GUCACA  CCAGC AUU GCA GA U
        |||||       ||||||| ||| ||||||||||||  |||| |||||||  ||||      ||| |||||| || |||||    ||||||  ||||| ||| ||| ||  
        GUUAG       UCGAUGU GCG UGUAAAGACGUA  CGUG ACGUGGU  UGUG      UUC GACACU AC UUAGG    CGGUGU  GGUUG UGG CGU CU U
------GA     GUCAAAC       U   U            UU    -       CA    ------   G      U  G     -UAA      UA     -   C   -  U

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

mpo-miR1030-b3.0r1-10150      UCUGCAUCUGCACCUGCACC-
ppt-miR1030h                  UCUGCAUCUGCACCUGCACCG
ppt-miR1030f                  UCUGCAUCUGCACCUGCACCA
ppt-miR1030g                  UCUGCAUCUGCACCUGCACCA
ppt-miR1030e                  UCUGCAUCUGCACCUGCACCA
ppt-miR1030d                  UCUGCAUCUGCACCUGCACCA
ppt-miR1030c                  UCUGCAUCUGCACCUGCACCA
ppt-miR1030b                  UCUGCAUCUGCACCUGCACCA
ppt-miR1030a                  UCUGCAUCUGCACCUGCACCA
ppt-miR1030j                  CCUGCAUCUGCACCUGCACCA
ppt-miR1030i                  CCUGCAUCUGCACCUGCACCG
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