PmiREN: Plant microRNA Encyclopedia

Ath-MIR394b

Basic info.

miRNA locus ID
Ath-MIR394b

miRNA locus accession
PmiREN000715

Organism
Arabidopsis thaliana

Genomic location
Ath-Chr1 28568801 28568936 +

Comments
A member of family MIR394

Confidence level

Secondary strurture and sequence

mature sequence star sequence

5'

3'

     T    T     GA   -      TTC              CTC     TTATGTGTAATAAGTGT
 AGAG CTCT ACAGA  TCT TTGGCA   TGTCCACCTCCTCT   TATAT                 
 |||| |||| |||||  ||| ||||||   ||||||||||||||   |||||                 A
 TCTT GGGA TGTCT  AGA AACCGT   ACGGGTGGAGGAGA   ATGCT                 
T    T    T     AG   T      CAT              ---     TTGTGTGGCATCTATGC

Get mature sequence
Get star sequence
Get miRNA stem-loop seqence
Get miRNA stem-loop ± 20bp
Get dot-bracket miRNA secondary structure
Get miRNA stem-loop ± 500bp
Get miRNA Promoter

miRNA cluster info.

Cluster ID:
Chromosome:
Cluster start:
Cluster end:

No miRNA locus in ± 10k bp interval.

miRNA syntenic block

Syntenic block ID	miRNA locus 1	miRNA locus 1 position	Organism	miRNA locus 2	miRNA locus 2 position
SY-303	Aly-MIR394a	Aly-scaffold_1: 8699220-8699343 +	Arabidopsis thaliana	Ath-MIR394b	Ath-Chr1: 28568801-28568936 +
SY-306	Aly-MIR394b	Aly-scaffold_2: 17011862-17011982 +	Arabidopsis thaliana	Ath-MIR394b	Ath-Chr1: 28568801-28568936 +
SY-657	Ath-MIR394b	Ath-Chr1: 28568801-28568936 +	Brassica rapa	Bra-MIR394a	Bra-A02: 14456109-14456225 +
SY-658	Ath-MIR394b	Ath-Chr1: 28568801-28568936 +	Brassica rapa	Bra-MIR394c	Bra-A07: 19165563-19165689 -
SY-659	Ath-MIR394b	Ath-Chr1: 28568801-28568936 +	Brassica rapa	Bra-MIR394e	Bra-A07: 25776276-25776410 +
SY-660	Ath-MIR394b	Ath-Chr1: 28568801-28568936 +	Eutrema salsugineum	Esa-MIR394b	Esa-scaffold_9: 1977466-1977599 -

Expression info.

Mature miRNA expression [+]

Reads per million (RPM)

star miRNA expression [+]

Reads per million (RPM)

Target gene info.[+]

Target gene ID	psRNAtarget	RNAhybrid	PARE-Seq? The first number (from 0-2) indicates the category of CleaveLand4 analysis result while the number in brackets displays the number of degradome libraries which verify the miRNA-target interaction. Click the number to download the selected figure of PARE-Seq reads distribution.
AT1G27340.1	1.0	1	2 (1)
AT1G10200.1	4.0	2	2 (1)
AT5G67130.1	4.0	NA	2 (2)
AT1G60940.1	5.0	NA	2 (1)
AT1G66900.1	NA	NA	2 (1)
AT1G67870.1	NA	NA	2 (2)
AT2G03800.1	NA	2	2 (2)
AT2G21250.1	NA	NA	2 (1)
AT2G26570.1	NA	NA	2 (2)
AT3G06450.1	NA	NA	2 (2)
AT4G16240.1	NA	NA	2 (2)
AT4G22670.1	NA	NA	2 (2)
AT4G39870.1	NA	NA	2 (1)
AT5G47710.1	NA	NA	2 (3)
AT5G52470.1	NA	NA	2 (2)
AT5G67490.1	NA	NA	2 (1)

Mature miRNA conservation

Link

Reference

>miR394 Acts as a Negative Regulator of Arabidopsis Resistance to B. cinerea Infection by Targeting LCR. Front Plant Sci, 2018

>Arabidopsis thaliana miRNAs promote embryo pattern formation beginning in the zygote. Dev Biol, 2017

>Proteomic Identification of Putative MicroRNA394 Target Genes in Arabidopsis thaliana Identifies Major Latex Protein Family Members Critical for Normal Development. Mol Cell Proteomics, 2016

>A protodermal miR394 signal defines a region of stem cell competence in the Arabidopsis shoot meristem. Dev Cell, 2013

>Overexpression of gma-MIR394a confers tolerance to drought in transgenic Arabidopsis thaliana. Biochem Biophys Res Commun, 2012