PmiREN: Plant microRNA Encyclopedia

Aly-MIR171c

Basic info.

miRNA locus ID
Aly-MIR171c

miRNA locus accession
PmiREN000466

Organism
Arabidopsis lyrata

Genomic location
Aly-scaffold_2 1951186 1951308 +

Comments
A member of family MIR171

Confidence level

Secondary strurture and sequence

mature sequence star sequence

5'

3'

  ATTATCGGACATC       A                       -      TAC     TGT
               GAATACG GATATTGGTGCGGTTCAATCAGA AAACTG   TCTTT   
               ||||||| ||||||||||||||||||||||| ||||||   |||||    
               TTTGTGC CTATAACCGTGCCGAGTTAGTTT TTTGGC   AGAAA   
TAGAAATTTGATAAA       A                       G      --T     TTT

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-230	Aly-MIR171c	Aly-scaffold_2: 1951186-1951308 +	Arabidopsis thaliana	Ath-MIR171c	Ath-Chr1: 22930075-22930197 -
SY-231	Aly-MIR171c	Aly-scaffold_2: 1951186-1951308 +	Capsella rubella	Cru-MIR171c	Cru-scaffold_2: 1254627-1254750 +
SY-232	Aly-MIR171c	Aly-scaffold_2: 1951186-1951308 +	Eutrema salsugineum	Esa-MIR171e	Esa-scaffold_8: 2266336-2266459 +

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.
AL4G44270.t1	1.5	NA	NA
AL5G42940.t1	1.5	NA	NA
AL6G53350.t1	1.5	NA	NA

Mature miRNA conservation

Link

Reference

No reference

Aly-MIR171c

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