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-miR395h

Organism

Brassica rapa

Species

Mature miRNA Sequence(5'-3')

CUGAAGUGUUUGGGGGGACUC

PmiREN

Precursor miRNA Sequence(5'-3')

ATTGTCAAATGTCCTCTTGAGTTCCCTTTAACGCTTCATTGTTCATACTTGGTTGTCTAGTAATCTACGGATAAATCTGTCCAATGAACACTGAAGTGTTTGGGGGGACTCTAGGTGGCATATTGGCGCCT

PmiREN

Precursor miRNA Structure(5'-3') 

-AU      -     C   U          U         U       ---  UUGG      A     
   UGUCAA AUGUC UCU GAGUUCCCUU AACGCUUCA UGUUCAU   AC    UUGUCU GUAA 
   |||||| ||||| ||| |||||||||| ||||||||| |||||||   ||    |||||| ||| U
   GCGGUU UACGG GGA CUCAGGGGGG UUGUGAAGU ACAAGUA   UG    AAUAGG CAUA 
UCC      A     U   U          U         C       ACC  UCUA      -

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

osa-miR395b         GUGAAGUGUUUGGGGGAACUC-
osa-miR395f         GUGAAUUGUUUGGGGGAACUC-
osa-miR395g         GUGAAGUGUUUGGGGGAACUC-
osa-miR395j         GUGAAGUGUUUGGGGGAACUC-
osa-miR395s         GUGAAGUGUUUGGGGGAACUC-
sbi-miR395d         GUGAAGUGUUUGGGGGAACUC-
zma-miR395a-3p      GUGAAGUGUUUGGGGGAACUC-
osa-miR395q         GUGAAGUGUUUGGGGGAACUC-
sbi-miR395h         GUGAAGUGUUUGGGGGAACUC-
zma-miR395e-3p      GUGAAGUGUUUGGGGGAACUC-
zma-miR395i-3p      GUGAAGUGUUUGGGGGAACUC-
osa-miR395y         GUGAAGUGUUUGGGGGAACUC-
tae-miR395a         GUGAAGUGUUUGGGGGAACUC-
osa-miR395t         GUGAAGUGUUUGGGGAAACUC-
osa-miR395e         GUGAAGUGUUUGGGGGAACUC-
osa-miR395i         GUGAAGUGUUUGGGGGAACUC-
osa-miR395l         GUGAAGUGUUUGGGGGAACUC-
sbi-miR395a         GUGAAGUGUUUGGGGGAACUC-
zma-miR395b-3p      GUGAAGUGUUUGGGGGAACUC-
osa-miR395p         GUGAAGUGUUUGGGGGAACUC-
sbi-miR395g         GUGAAGUGUUUGGGGGAACUC-
zma-miR395d-3p      GUGAAGUGUUUGGGGGAACUC-
zma-miR395h-3p      GUGAAGUGUUUGGGGGAACUC-
zma-miR395p-3p      GUGAAGUGUUUGGGGGAACUC-
pvi-miR395a         GUGAAGUGCUUGGGGGAACUC-
osa-miR395a         GUGAAGUGCUUGGGGGAACUC-
sbi-miR395l         GUGAAGUGCUUGGGGGAACUC-
sit-miR395k         GUGAAGUGUUUGGGGGAACUC-
osa-miR395d         GUGAAGUGUUUGGGGGAACUC-
osa-miR395h         GUGAAGUGUUUGGGGGAACUC-
osa-miR395k         GUGAAGUGUUUGGGGGAACUC-
sbi-miR395b         GUGAAGUGUUUGGGGGAACUC-
sbi-miR395e         GUGAAGUGUUUGGGGGAACUC-
osa-miR395n         GUGAAGUGUUUGGGGGAACUC-
sbi-miR395c         GUGAAGUGUUUGGGGGAACUC-
sbi-miR395j         GUGAAGUGUUUGGGGGAACUC-
zma-miR395g-3p      GUGAAGUGUUUGGGGGAACUC-
zma-miR395n-3p      GUGAAGUGUUUGGGGGAACUC-
zma-miR395j-3p      GUGAAGUGUUUGGGGGAACUC-
zma-miR395f-3p      GUGAAGUGUUUGGGGGAACUC-
sbi-miR395i         GUGAAGUGUUUGGGGGAACUC-
osa-miR395r         GUGAAGUGUUUGGGGGAACUC-
osa-miR395m         GUGAAGUGUUUGGGGGAACUC-
bra-miR395g         CUGAAGUGUUUGGGGGGACUC-
bra-miR395h         CUGAAGUGUUUGGGGGGACUC-
bra-miR395i         CUGAAGUGUUUGGGGGGACUC-
cru-miR395d         CUGAAGUGUUUGGGGGAGCUC-
osa-miR395u         GUGAAGCGUUUGGGGGAAAUC-
osa-miR395w         GUGAAGUGUUUGGGGGAUUCUC
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