PmiREN: Plant microRNA Encyclopedia

Aly-MIR397a

Basic info.

miRNA locus ID
Aly-MIR397a

miRNA locus accession
PmiREN000514

Organism
Arabidopsis lyrata

Genomic location
Aly-scaffold_6 22804022 22804147 +

Comments
A member of family MIR397

Confidence level

Secondary strurture and sequence

mature sequence star sequence

5'

3'

       TT   -AT      C                A     T   C    TT       GT
TCCTGGA  TGA   GAACAT ATTGAGTGCAGCGTTG TGTAA TTC TTTT  TTTCATT  
|||||||  |||   |||||| |||||||||||||||| ||||| ||| ||||  |||||||   
AGGACTT  ATT   TTTGTA TAACTCGCGTTGCGGC ACATT AAG AAAA  AAGGTAA  
       TT   CTT      T                C     T   -    TT       GT

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-334	Aly-MIR397a	Aly-scaffold_6: 22804022-22804147 +	Arabidopsis thaliana	Ath-MIR397a	Ath-Chr4: 2625940-2626068 +
SY-335	Aly-MIR397a	Aly-scaffold_6: 22804022-22804147 +	Capsella rubella	Cru-MIR397a	Cru-scaffold_6: 14975608-14975750 +

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.
AL4G23690.t1	0.5	NA	NA
AL4G35080.t1	1.0	NA	NA
AL8G36610.t1	1.0	NA	NA

Mature miRNA conservation

Link

Reference

No reference

Aly-MIR397a

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