PmiREN: Plant microRNA Encyclopedia

Aly-MIR165a

Basic info.

miRNA locus ID
Aly-MIR165a

miRNA locus accession
PmiREN000434

Organism
Arabidopsis lyrata

Genomic location
Aly-scaffold_1 449084 449219 +

Comments
A member of family MIR165

Confidence level

Secondary strurture and sequence

mature sequence star sequence

5'

3'

 TTAA  T  TT  -    A    A   TT      A           ATACATATA         ATG
     GC AT  CA GTTG GGGG ATG  GTCTGG TCGAGGATATT         TACATGTGT   
     || ||  || |||| |||| |||  |||||| |||||||||||         |||||||||    
     CG TA  GT CAAC CCCC TAC  CGGACC GGCTCCTATGA         GTGTACATA   
GTCTC  T  TT  A    C    C   TT      A           GAGATACTA         GTT

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-99	Aly-MIR165a	Aly-scaffold_1: 449084-449219 +	Arabidopsis thaliana	Ath-MIR165a	Ath-Chr1: 78912-79050 -
SY-100	Aly-MIR165a	Aly-scaffold_1: 449084-449219 +	Brassica oleracea	Bol-MIR165a	Bol-C05: 281079-281228 +
SY-101	Aly-MIR165a	Aly-scaffold_1: 449084-449219 +	Brassica oleracea	Bol-MIR165b	Bol-C08: 41197079-41197233 -
SY-102	Aly-MIR165a	Aly-scaffold_1: 449084-449219 +	Brassica rapa	Bra-MIR165b	Bra-A09: 44653661-44653815 -
SY-103	Aly-MIR165a	Aly-scaffold_1: 449084-449219 +	Brassica rapa	Bra-MIR165d	Bra-A10: 341341-341496 +
SY-104	Aly-MIR165a	Aly-scaffold_1: 449084-449219 +	Capsella rubella	Cru-MIR165a	Cru-scaffold_1: 365526-365675 +
SY-105	Aly-MIR165a	Aly-scaffold_1: 449084-449219 +	Eutrema salsugineum	Esa-MIR165	Esa-scaffold_5: 15258725-15258867 -

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.
AL1G44520.t1	0.5	NA	NA
AL4G30700.t1	0.5	NA	NA
AL7G18830.t1	0.5	NA	NA
AL8G37280.t1	0.5	NA	NA
AL1G60240.t1	1.5	NA	NA

Mature miRNA conservation

Link

Reference

No reference

Aly-MIR165a

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