PmiREN: Plant microRNA Encyclopedia

Aly-MIR166c

Basic info.

miRNA locus ID
Aly-MIR166c

miRNA locus accession
PmiREN000438

Organism
Arabidopsis lyrata

Genomic location
Aly-scaffold_6 3626977 3627123 +

Comments
A member of family MIR166

Confidence level

Secondary strurture and sequence

mature sequence star sequence

5'

3'

GGTGCG --------TTTAG     A A      TT      C      -    GA   --AGA   TATCACTCCAATTAA
      A             GGTTG G GGAATG  GTCTGG TCGAGG TCAT  AGG     GGA               
      |             ||||| | ||||||  |||||| |||||| ||||  |||     |||                
      T             CCAAT C CCTTAC  CGGACC GGCTCT AGTA  TCC     AAT               
       TTTCACTATTCAG     C C      TT      A      T    AA   CAAAG   TAAGCAAGAAGGTTT

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: 3152
Chromosome: Aly-scaffold_6
Cluster start: 3626977
Cluster end: 3632304

miRNA locus ID	miRNA locus accession	Chromosome	Strand	Start	End
Aly-MIR166c , Aly-MIR166d	PmiREN000438, PmiREN000439	Aly-scaffold_6	+	3626977	3632304

miRNA syntenic block

Syntenic block ID	miRNA locus 1	miRNA locus 1 position	Organism	miRNA locus 2	miRNA locus 2 position
SY-125	Aly-MIR166c	Aly-scaffold_6: 3626977-3627123 +	Arabidopsis lyrata	Aly-MIR166g	Aly-scaffold_8: 21095447-21095574 +
SY-126	Aly-MIR166c	Aly-scaffold_6: 3626977-3627123 +	Arabidopsis thaliana	Ath-MIR166c	Ath-Chr5: 2838632-2838777 +
SY-127	Aly-MIR166c	Aly-scaffold_6: 3626977-3627123 +	Brassica oleracea	Bol-MIR166e	Bol-C09: 37643395-37643509 -
SY-128	Aly-MIR166c	Aly-scaffold_6: 3626977-3627123 +	Brassica rapa	Bra-MIR165a	Bra-A06: 19223499-19223626 +
SY-129	Aly-MIR166c	Aly-scaffold_6: 3626977-3627123 +	Brassica rapa	Bra-MIR166g	Bra-A10: 17564454-17564568 -
SY-130	Aly-MIR166c	Aly-scaffold_6: 3626977-3627123 +	Capsella rubella	Cru-MIR166c	Cru-scaffold_6: 2828675-2828826 +
SY-131	Aly-MIR166c	Aly-scaffold_6: 3626977-3627123 +	Capsella rubella	Cru-MIR166g	Cru-scaffold_8: 11863928-11864056 +
SY-132	Aly-MIR166c	Aly-scaffold_6: 3626977-3627123 +	Eutrema salsugineum	Esa-MIR166f	Esa-scaffold_2: 2892571-2892703 +
SY-133	Aly-MIR166c	Aly-scaffold_6: 3626977-3627123 +	Eutrema salsugineum	Esa-MIR166h	Esa-scaffold_6: 1539129-1539256 -

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.
AL1G60240.t1	0.5	NA	NA
AL1G44520.t1	1.0	NA	NA
AL4G30700.t1	1.0	NA	NA
AL7G18830.t1	1.0	NA	NA
AL8G37280.t1	1.0	NA	NA

Mature miRNA conservation

Link

Reference

No reference

Aly-MIR166c

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