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

mpo-miR1030-b3.0r1-10150

Organism

Marchantia polymorpha

Species

Mature miRNA Sequence(5'-3')

UCUGCAUCUGCACCUGCACC

Plant sRNA Gene (Penn State Uni)

Precursor miRNA Sequence(5'-3')

UCACUUCAUAUGCUGCAAUGCUCUAUGUCUGCAUCUGCACCUGCACCAGUUCUACUCUUGCUUUGGCCAAAUUUCUGGAGCUCGAUCAGUUCGGGUGCAGGUGUGGUUGCAGAUACAUAACAUUGUCGCUCCUGCAACCACAUGUACUACAGUGAAAGUCAAGUAUUCAAGUAUGGUCUCUCACGAAGAAAGUGUGUUUCGAG

Precursor miRNA Structure(5'-3') 

---------------------------------------------------------------UCACUUCAUAU  U      CUCUA        U             A UU  AC  UU       CCA 
                                                                          GC GCAAUG     UGUCUGCA CUGCACCUGCACC G  CU  UC  GCUUUGG   A
                                                                          || ||||||     |||||||| ||||||||||||| |  ||  ||  |||||||    
                                                                          CG UGUUAC     AUAGACGU GGUGUGGACGUGG C  GA  AG  CGAGGUC   U
GAGCUUUGUGUGAAAGAAGCACUCUCUGGUAUGAACUUAUGAACUGAAAGUGACAUCAUGUACACCAACGUCCU  C      AAUAC        U             G UU  CU  CU       UUU

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
                               *******************