PmiREN: Plant microRNA Encyclopedia

Cru-MIR164c

Basic info.

miRNA locus ID
Cru-MIR164c

miRNA locus accession
PmiREN002754

Organism
Capsella rubella

Genomic location
Cru-scaffold_6 26048 26250 -

Comments
A member of family MIR164

Confidence level

Secondary strurture and sequence

mature sequence star sequence

5'

3'

          -T   TTGAG  A     A    CA         CATT          --C  G   GCATATATATATATATATACACGACTCTCAGCAAATGTAT
    AAGGTG  GTG     CA GATGG GAAG  GGGCACGTG    ACTAGCTCAT   TC CTT                                        
    ||||||  |||     || ||||| ||||  |||||||||    ||||||||||   || |||                                         
    TTCCAC  CAC     GT CTACC CTTC  CCCGTGTAC    TGATTGAGTA   AG CTA                                        
GTAG      TT   ---CA  A     C    TA         TTCT          AGT  -   GCAGTGGTTTTAAGGGGATATATATATATAATTATATACG

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-94	Aly-MIR164b	Aly-scaffold_6: 111763-111961 -	Capsella rubella	Cru-MIR164c	Cru-scaffold_6: 26048-26250 -
SY-476	Ath-MIR164b	Ath-Chr5: 287566-287756 +	Capsella rubella	Cru-MIR164c	Cru-scaffold_6: 26048-26250 -
SY-760	Bol-MIR164b	Bol-C02: 55672-55845 -	Capsella rubella	Cru-MIR164c	Cru-scaffold_6: 26048-26250 -
SY-956	Bra-MIR164f	Bra-A02: 100977-101150 -	Capsella rubella	Cru-MIR164c	Cru-scaffold_6: 26048-26250 -
SY-1216	Cru-MIR164c	Cru-scaffold_6: 26048-26250 -	Eutrema salsugineum	Esa-MIR164c	Esa-scaffold_2: 113802-113982 -

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.0006s0665.1	0.5	1	NA
Carub.0008s2211.1	0.5	1	NA
Carub.0001s4460.1	1.0	1	NA
Carub.0003s1482.1	1.0	NA	NA
Carub.0008s1426.1	1.0	1	NA

Mature miRNA conservation

Link

No link
No link

Reference

>Sequence and functional characterization of MIRNA164 promoters from Brassica shows copy number dependent regulatory diversification among homeologs. Funct Integr Genomics, 2018