PmiREN: Plant microRNA Encyclopedia

Cru-MIR166a

Basic info.

miRNA locus ID
Cru-MIR166a

miRNA locus accession
PmiREN002757

Organism
Capsella rubella

Genomic location
Cru-scaffold_4 14490144 14490324 +

Comments
A member of family MIR166

Confidence level

Secondary strurture and sequence

mature sequence star sequence

5'

3'

     A     TTTCT TT   A        TT      C    G   T    CTC     -T    TGTT  GGATCTTCTTCGATCTAATCTTTGA
      GGGGC     C  TTG GGGGAATG  GTCTGG TCGA GAC CTGG   GCTCT  TTCA    TT                         
      |||||     |  ||| ||||||||  |||||| |||| ||| ||||   |||||  ||||    ||                          
      CCTCG     G  AAC CCCCTTAC  CGGACC GGCT CTG GATT   TGGGA  AGTC    TA                         
TTAGTA     ---TT TT   C        TT      A    G   T    --T     TT    ----  GTCTAGACTTTAGACCTCCAAGTCA

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-496	Ath-MIR166a	Ath-Chr2: 19176108-19176281 +	Capsella rubella	Cru-MIR166a	Cru-scaffold_4: 14490144-14490324 +
SY-502	Ath-MIR166b	Ath-Chr3: 22922192-22922341 +	Capsella rubella	Cru-MIR166a	Cru-scaffold_4: 14490144-14490324 +
SY-778	Bol-MIR166a	Bol-C04: 3332597-3332767 +	Capsella rubella	Cru-MIR166a	Cru-scaffold_4: 14490144-14490324 +
SY-792	Bol-MIR166d	Bol-C04: 40715614-40715778 +	Capsella rubella	Cru-MIR166a	Cru-scaffold_4: 14490144-14490324 +
SY-967	Bra-MIR166b	Bra-A04: 21244922-21245087 +	Capsella rubella	Cru-MIR166a	Cru-scaffold_4: 14490144-14490324 +
SY-971	Bra-MIR166c	Bra-A05: 682813-682983 -	Capsella rubella	Cru-MIR166a	Cru-scaffold_4: 14490144-14490324 +
SY-1217	Cru-MIR166a	Cru-scaffold_4: 14490144-14490324 +	Eutrema salsugineum	Esa-MIR166a	Esa-scaffold_22: 1329544-1329726 +
SY-1218	Cru-MIR166a	Cru-scaffold_4: 14490144-14490324 +	Eutrema salsugineum	Esa-MIR166d	Esa-scaffold_19: 528598-528750 -

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.
Carub.0005s2865.1	0.0	0	NA
Carub.0001s4109.1	0.5	NA	NA
Carub.0001s2871.1	1.0	NA	NA
Carub.0004s1640.1	1.0	NA	NA
Carub.0007s0761.1	1.0	NA	NA
Carub.0008s2137.1	1.0	NA	NA

Mature miRNA conservation

Link

No link
No link

Reference

No reference

Cru-MIR166a

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