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

esa-miRN1029

Organism

Eutrema salsugineum

Species

Mature miRNA Sequence(5'-3')

UCCCGACUGCAUCAACUGAAU

PmiREN

Precursor miRNA Sequence(5'-3')

AGTCACCGTCGGGCTCGGATTCGCTTGGTGCAGCTCGGGAAGCAATTGGCTGACACAACCACTTGACCTTTTCCTCGTTGGTTTGTGAGCAGTGAATGGATCCCGACTGCATCAACTGAATCGGAGTCTCGCTGGTGAAAA

PmiREN

Precursor miRNA Structure(5'-3') 

-AG      U  -     G      C         C      AG  A  G    -A     -   CU   CCU 
   UCACCG CG GGCUC GAUUCG UUGGUGCAG UCGGGA  CA UU GCUG  CACAA CCA  UGA   U
   |||||| || ||||| |||||| ||||||||| ||||||  || || ||||  ||||| |||  |||    
   AGUGGU GC CUGAG CUAAGU AACUACGUC AGCCCU  GU AA UGAC  GUGUU GGU  GCU   C
AAA      C  U     G      C         -      AG  -  G    GA     U   -U   CCU

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

zma-miR168a-3p      ---CCCGCCUUGCACCAAGUGAA-
bdi-miR168-3p       ---CCCGCCUUGCACCAAGUGAAU
hvu-miR168-3p       GAUCCCGCCUUGCACCAAGUGAAU
osa-miR168a-3p      GAUCCCGCCUUGCACCAAGUGAAU
zma-miR168b-3p      ---CCCGCCUUGCAUCAAGUGAA-
csi-miR168-3p       ---CCCGCCUUGCAUCAACUGAAU
sly-miR168a-3p      ---CCUGCCUUGCAUCAACUGAAU
fve-miR168-3p       ---CCCGCCUUGCAUCAACUGAAU
sly-miR168b-3p      ---CCCGCCUUGCAUCAACUGAAU
mtr-miR168c-3p      ---CCCGCCUUGCAUCAACUGAAU
aly-miR168a-3p      ---CCCGCCUUGCAUCAACUGAAU
ptc-miR168b-3p      ---CCCGCCUUGCAUCAACUGAAU
ptc-miR168a-3p      ---CCCGCCUUGCAUCAACUGAAU
ath-miR168a-3p      ---CCCGCCUUGCAUCAACUGAAU
esa-miRN1029        --UCCCGACU-GCAUCAACUGAAU
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