PmiREN: Plant microRNA Encyclopedia

Aly-MIR394b

Basic info.

miRNA locus ID
Aly-MIR394b

miRNA locus accession
PmiREN000504

Organism
Arabidopsis lyrata

Genomic location
Aly-scaffold_2 17011862 17011982 +

Comments
A member of family MIR394

Confidence level

Secondary strurture and sequence

mature sequence star sequence

5'

3'

     T    T     GA   -      TTC                 TATATGTATATGT
 AGAG CTCT ACAGA  TCT TTGGCA   TGTCCACCTCCTCTCTC             
 |||| |||| |||||  ||| ||||||   |||||||||||||||||             A
 TCTT GGGA TGTCT  AGA AACCGT   ACAGGTGGAGGGGAGTG             
T    T    T     AG   C      TAT                 TTCTGTCGCGAGT

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-306	Aly-MIR394b	Aly-scaffold_2: 17011862-17011982 +	Arabidopsis thaliana	Ath-MIR394b	Ath-Chr1: 28568801-28568936 +
SY-307	Aly-MIR394b	Aly-scaffold_2: 17011862-17011982 +	Brassica rapa	Bra-MIR394c	Bra-A07: 19165563-19165689 -
SY-308	Aly-MIR394b	Aly-scaffold_2: 17011862-17011982 +	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.
AL1G40740.t1	1.0	1	NA

Mature miRNA conservation

Link

Reference

No reference

Aly-MIR394b

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