PmiREN: Plant microRNA Encyclopedia

Aly-MIR156a

Basic info.

miRNA locus ID
Aly-MIR156a

miRNA locus accession
PmiREN000405

Organism
Arabidopsis lyrata

Genomic location
Aly-scaffold_4 3693798 3693921 -

Comments
A member of family MIR156

Confidence level

Secondary strurture and sequence

mature sequence star sequence

5'

3'

 C      AAC   -AA   A         -   -         A   ---      TT    TAT
  AAGAGA   GCA   GAA CTGACAGAA GAG AGTGAGCAC CAA   AGGCAA  TGCA   
  ||||||   |||   ||| ||||||||| ||| ||||||||| |||   ||||||  ||||    
  TTCTCT   CGT   CTT GACTGTCTT CTC TCACTCGTG GTT   TTCGTT  ACGT   
GT      AGT   GGC   A         T   G         C   CTC      -T    TAC

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-1	Aly-MIR156a	Aly-scaffold_4: 3693798-3693921 -	Arabidopsis thaliana	Ath-MIR156a	Ath-Chr2: 10676450-10676573 -
SY-2	Aly-MIR156a	Aly-scaffold_4: 3693798-3693921 -	Arabidopsis thaliana	Ath-MIR156c	Ath-Chr4: 15415406-15415530 -
SY-3	Aly-MIR156a	Aly-scaffold_4: 3693798-3693921 -	Brassica rapa	Bra-MIR156f	Bra-A09: 38656170-38656292 +
SY-4	Aly-MIR156a	Aly-scaffold_4: 3693798-3693921 -	Brassica rapa	Bra-MIR156j	Bra-A01: 2925936-2926060 +
SY-5	Aly-MIR156a	Aly-scaffold_4: 3693798-3693921 -	Brassica rapa	Bra-MIR156o	Bra-A04: 13621955-13622077 -
SY-6	Aly-MIR156a	Aly-scaffold_4: 3693798-3693921 -	Capsella rubella	Cru-MIR156a	Cru-scaffold_4: 2142098-2142223 -
SY-7	Aly-MIR156a	Aly-scaffold_4: 3693798-3693921 -	Capsella rubella	Cru-MIR156d	Cru-scaffold_7: 3310268-3310392 +
SY-8	Aly-MIR156a	Aly-scaffold_4: 3693798-3693921 -	Eutrema salsugineum	Esa-MIR156d	Esa-scaffold_15: 4948287-4948425 -
SY-9	Aly-MIR156a	Aly-scaffold_4: 3693798-3693921 -	Eutrema salsugineum	Esa-MIR156f	Esa-scaffold_1: 3452779-3452903 +

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.
AL4G29580.t1	0.5	0	NA
AL1G40760.t1	1.0	NA	NA
AL1G40770.t1	1.0	NA	NA
AL1G61520.t1	1.0	1	NA
AL2G28260.t1	1.0	1	NA
AL8G17210.t1	1.0	1	NA
AL8G24830.t1	1.0	1	NA
AL8G31390.t1	1.5	NA	NA
AL3G27660.t1	2.0	1	NA
AL4G40560.t1	2.0	2	NA

Mature miRNA conservation

Link

Reference

No reference

Aly-MIR156a

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