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

smo-miR536

Organism

Selaginella moellendorffii

Species

Mature miRNA Sequence(5'-3')

UCGUGUCAAGCUGUGUGCAUC

miRBase

Precursor miRNA Sequence(5'-3')

GUGUUUUUGAUGCACUCAGCUUGACACGGCCGUGCUUGGAAGUCUGGAAAGUUUUCUUUCACGCUCCACUGAUGCUGCUGCUGCAAUGCGUGCUGACUCUCUCUCUCUCUCUUGGUCGUGUCAAGCUGUGUGCAUCACAACGCAUUGCUCGUUUUCA

miRBase

Precursor miRNA Structure(5'-3') 

--------------     UU        U                UGCUUGGAAGUCUGGAAAGUUUUCUUUCACGCUCCACUG 
              GUGUU  UGAUGCAC CAGCUUGACACGGCCG                                       A
              |||||  |||||||| ||||||||||||||||                                        
              CGCAA  ACUACGUG GUCGAACUGUGCUGGU                                       C
ACUUUUGCUCGUUA     -C        U                UCUCUCUCUCUCUCUCAGUCGUGCGUAACGUCGUCGUCG

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

ppt-miR536a              UUCGUGCCAAGCUGUGUGCAAC
ppt-miR536f              UUCGUGCCAAGCUGUGUGCA--
ppt-miR536b              UUCGUGCCAAGCUGUGUGCAAC
ppt-miR536d              UUCGUGCCAAGCUGUGUGCAAC
ppt-miR536e              UUCGUGCCAAGCUGUGUGCAAC
mpo-miR-b3.0r1-4273      -CCGUGCCAAGCUGUGUGCAUC
smo-miR536               -UCGUGUCAAGCUGUGUGCAUC
                           **** *************