PmiREN: Plant microRNA Encyclopedia

Aly-MIR159a

Basic info.

miRNA locus ID
Aly-MIR159a

miRNA locus accession
PmiREN000421

Organism
Arabidopsis lyrata

Genomic location
Aly-scaffold_2 15958622 15958842 -

Comments
A member of family MIR159

Confidence level

Secondary strurture and sequence

mature sequence star sequence

5'

3'

      AAAA     T   A            GA        C      -T    ------       AGA      G  A  C    G TC     -    CT       ATAAAG
   GAA    AAAGA GGA GTAGAGCTCCTT  AGTTCAAA GAGAGT  GAGC      AGGGTAA   AAAGCT CT AG TATG A  CCATA AGCC  AATCCTT      
   |||    ||||| ||| ||||||||||||  |||||||| ||||||  ||||      |||||||   |||||| || || |||| |  ||||| ||||  |||||||       
   CTT    TTTCT TCT CATCTCGAGGGA  TTAGGTTT TTCTCA  TTCG      TCCCGTT   TTTCGA GA TC ATAC T  GGTAT TTGG  TTAGGAA      
TCT   CCAC     -   A            AG        C      TT    GTAATT       CAA      G  C  T    G TC     A    -T       AAAAAA

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-57	Aly-MIR159a	Aly-scaffold_2: 15958622-15958842 -	Arabidopsis thaliana	Ath-MIR159a	Ath-Chr1: 27713214-27713433 -
SY-58	Aly-MIR159a	Aly-scaffold_2: 15958622-15958842 -	Arabidopsis thaliana	Ath-MIR159b	Ath-Chr1: 6220630-6220853 +
SY-59	Aly-MIR159a	Aly-scaffold_2: 15958622-15958842 -	Brassica oleracea	Bol-MIR159a	Bol-C02: 16850346-16850562 -
SY-60	Aly-MIR159a	Aly-scaffold_2: 15958622-15958842 -	Brassica oleracea	Bol-MIR159c	Bol-C06: 3552444-3552661 +
SY-61	Aly-MIR159a	Aly-scaffold_2: 15958622-15958842 -	Brassica rapa	Bra-MIR159a	Bra-A07: 19765886-19766103 +
SY-62	Aly-MIR159a	Aly-scaffold_2: 15958622-15958842 -	Brassica rapa	Bra-MIR159b	Bra-A02: 12875495-12875712 -
SY-63	Aly-MIR159a	Aly-scaffold_2: 15958622-15958842 -	Brassica rapa	Bra-MIR159d	Bra-A07: 24993751-24993975 +
SY-64	Aly-MIR159a	Aly-scaffold_2: 15958622-15958842 -	Capsella rubella	Cru-MIR159a	Cru-scaffold_1: 6244044-6244271 +
SY-65	Aly-MIR159a	Aly-scaffold_2: 15958622-15958842 -	Capsella rubella	Cru-MIR159b	Cru-scaffold_2: 11281838-11282056 -
SY-66	Aly-MIR159a	Aly-scaffold_2: 15958622-15958842 -	Eutrema salsugineum	Esa-MIR159b	Esa-scaffold_9: 3074879-3075095 +

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.
AL4G20230.t1	2.0	1	NA
AL4G27850.t1	2.0	NA	NA
AL5G42720.t1	2.0	1	NA
AL7G12910.t1	2.0	2	NA

Mature miRNA conservation

Link

Reference

No reference

Aly-MIR159a

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