PmiREN: Plant microRNA Encyclopedia

Bol-MIR166a

Basic info.

miRNA locus ID
Bol-MIR166a

miRNA locus accession
PmiREN002332

Organism
Brassica oleracea

Genomic location
Bol-C04 3332597 3332767 +

Comments
A member of family MIR166

Confidence level

Secondary strurture and sequence

mature sequence star sequence

5'

3'

        -  TTTCTCTT   A        TT      C    G   T   --      TCTACTCAT        CTC      CTAATCGAAT
    AGGG GT        TTG GGGGAATG  GTCTGG TCGA GAC CTA  GCTCTA         GTTGGATC   TTCGAT          
    |||| ||        ||| ||||||||  |||||| |||| ||| |||  ||||||         ||||||||   ||||||          C
    TCCC CG        AAC CCCCTTAC  CGGACC GGCT CTG GAT  TGGGAT         TAGTCTAG   AGTTTG          
TAAG    T  ---TTATT   C        TT      A    G   T   TT      ---------        ---      TATCTCCAAA

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-111	Aly-MIR166a	Aly-scaffold_4: 22684208-22684381 +	Brassica oleracea	Bol-MIR166a	Bol-C04: 3332597-3332767 +
SY-118	Aly-MIR166b	Aly-scaffold_5: 20552771-20552919 +	Brassica oleracea	Bol-MIR166a	Bol-C04: 3332597-3332767 +
SY-775	Bol-MIR166a	Bol-C04: 3332597-3332767 +	Brassica oleracea	Bol-MIR166d	Bol-C04: 40715614-40715778 +
SY-776	Bol-MIR166a	Bol-C04: 3332597-3332767 +	Brassica rapa	Bra-MIR166b	Bra-A04: 21244922-21245087 +
SY-777	Bol-MIR166a	Bol-C04: 3332597-3332767 +	Brassica rapa	Bra-MIR166c	Bra-A05: 682813-682983 -
SY-778	Bol-MIR166a	Bol-C04: 3332597-3332767 +	Capsella rubella	Cru-MIR166a	Cru-scaffold_4: 14490144-14490324 +
SY-779	Bol-MIR166a	Bol-C04: 3332597-3332767 +	Eutrema salsugineum	Esa-MIR166a	Esa-scaffold_22: 1329544-1329726 +
SY-780	Bol-MIR166a	Bol-C04: 3332597-3332767 +	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.
Bol019484	0.5	NA	NA
Bol035052	0.5	NA	NA
Bol017514	1.0	NA	NA
Bol017856	1.0	NA	NA
Bol022567	1.0	NA	NA
Bol035990	1.0	NA	NA
Bol037848	1.0	NA	NA
Bol027381	1.5	NA	NA
Bol041327	1.5	NA	NA

Mature miRNA conservation

Link

No link
No link

Reference

>High-throughput sequencing identification of novel and conserved miRNAs in the Brassica oleracea leaves. BMC Genomics, 2013