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-miR395e-5p

Organism

Brachypodium distachyon

Species

Mature miRNA Sequence(5'-3')

GUUCUCCUCAAAUCACUUCAGU

miRBase

Precursor miRNA Sequence(5'-3')

GUUGGUUGUCACCUGGAGUUCUCCUCAAAUCACUUCAGUAGCUAGCUAGCUUGUGCCUCCUUGUUGCAUUGCCACUGUUUUAUAAGUGUGCUUGGGGCCAGAGAGCUGUGCACAGUGAAGUGUUUGGGGGAACUCUGGGUGGCAACCAGC

miRBase

Precursor miRNA Structure(5'-3') 

                        U    U       G -A  -     AG  U U   U  UUGUU   UUGC    GUU 
GUUGGUUGUCACCUGGAGUUCUCC CAAA CACUUCA U  GC UAGCU  CU G GCC CC     GCA    CACU   U
|||||||||||||||||||||||| |||| ||||||| |  || |||||  || | ||| ||     |||    ||||    
CGACCAACGGUGGGUCUCAAGGGG GUUU GUGAAGU A  CG GUCGA  GA C CGG GG     CGU    GUGA   U
                        -    -       G CA  U     GA  - -   -  ---UU   ----    AUA

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

zma-miR395a-5p      ---GUUCUCCUCAAACCACUUCAGUU
bdi-miR395e-5p      ---GUUCUCCUCAAAUCACUUCAGU-
ppe-miR395a-5p      ---GUUC-CCUCAAA-CACUUCAUU-
ppe-miR395b-5p      ---GUUC-CCUCAAA-CACUUCAUU-
ppe-miR395o         ---GUUC-CCUCAAA-CACUUCAUU-
mdm-miR395k         ---GUUU-CCUCAAA-CACUUCAUU-
aly-miR395d-5p      ---GUUC-UCCCGAA-CACUUCAUUG
pvi-miR395d         -UGAAGUGUUUGGGAGAACUC-----
gma-miR395h         AUGAAGUGUUUGGGAGAACUC-----
                                  *  ***