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

bdi-miR160d-3p

Organism

Brachypodium distachyon

Species

Mature miRNA Sequence(5'-3')

GCGUGCACGGAGCCAAGCAUA

miRBase

Precursor miRNA Sequence(5'-3')

AGAGACGAAGGUGAAGCUUAUGUUGGGAUGUGCCUGGCUCCCUGUAUGCCACUCAUCUAUAGCAACAUUCCUUCCUGAUGAGGUUGCCUAGGAUGGAUGGCGUGCACGGAGCCAAGCAUAUCCCCCUUGAUCCCAACCGUCUCUUCUCAU

miRBase

Precursor miRNA Structure(5'-3') 

------       -AA  U  AGC   UGUU         C       C         C      AUA     A   CUU 
      AGAGACG   GG GA   UUA    GGGAUGUGC UGGCUCC UGUAUGCCA UCAUCU   GCAAC UUC   C
      |||||||   || ||   |||    ||||||||| ||||||| ||||||||| ||||||   ||||| |||   C
      UCUCUGC   CC CU   AGU    CCCUAUACG ACCGAGG ACGUGCGGU GGUAGG   CGUUG GAG   A
UACUCU       CAA  -  ---   -UCC         A       C         A      AUC     -   UAG

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

osa-miR160c-3p      GCGUGCACGGAGCCAAGCAUA
bdi-miR160d-3p      GCGUGCACGGAGCCAAGCAUA
bdi-miR160b-3p      GCGUGCAAGGAGCCAAGCAUG
bdi-miR160c-3p      GCGUGCAAGGAGCCAAGCAUG
zma-miR160g-3p      GCGUGCAAGGAGCCAAGCAUG
zma-miR160b-3p      GCGUGCAAGGAGCCAAGCAUG
zma-miR160c-3p      GCGUGCAUGGUGCCAAGCAUA
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