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

bra-miR158a

Organism

Brassica rapa

Species

Mature miRNA Sequence(5'-3')

UUUCCAAAUGUAGACAAAGCA

PmiREN

Precursor miRNA Sequence(5'-3')

AGCACGTTATATCTGTTCTTCTTTGTCTATCGTTTGGAAAAGATTGATGACGCCATCTACACTTTTCCAAATGTAGACAAAGCAAAACCGTGATGACGTCGTAG

PmiREN

Precursor miRNA Structure(5'-3') 

-A  -       AU U   CUU         U            -AUU    A 
  GC ACGUUAU  C GUU   CUUUGUCUA CGUUUGGAAAAG    GAUG C
  || |||||||  | |||   ||||||||| ||||||||||||    ||||  
  UG UGCAGUA  G CAA   GAAACAGAU GUAAACCUUUUC    CUAC C
GA  C       GU C   AAC         -            ACAU    C

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

bra-miR158b         --UCCCAAAUGUAGACAAAGCA
aly-miR158b-3p      --UCCCAAAUGUAGACAAAGC-
ath-miR158a-3p      --UCCCAAAUGUAGACAAAGCA
aly-miR158a-3p      --UCCCAAAUGUAGACAAAGCA
ath-miR158b         --CCCCAAAUGUAGACAAAGCA
esa-miR158b         UUUUCCAAAUGUUGACAAAGCA
bol-miR158          -UUUCCAAAUGUAGACAAAGCA
bra-miR158a         -UUUCCAAAUGUAGACAAAGCA
esa-miR158a         -UUUCCAAAUGUAGACAAAGCA
                        ******** ********