PmiREN: Plant microRNA Encyclopedia

Bol-MIR164a

Basic info.

miRNA locus ID
Bol-MIR164a

miRNA locus accession
PmiREN002326

Organism
Brassica oleracea

Genomic location
Bol-C02 42582788 42582909 +

Comments
A member of family MIR164

Confidence level

Secondary strurture and sequence

mature sequence star sequence

5'

3'

   AAT   T   TA    T  C     A  C              CA    A       CGGT
      GGG GAG  ACAC TG TGGAG AG AGGGCACGTGCGAA  AATG GATCGAT    
      ||| |||  |||| || ||||| || ||||||||||||||  |||| |||||||     
      CCC CTC  TGTG AC ACCTC TC TCTTGTGCACGCTT  TTAT CTAGTTG    
CCCTCC   -   TG    C  A     A  A              --    A       TATC

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-478	Ath-MIR164c	Ath-Chr5: 9852664-9852787 +	Brassica oleracea	Bol-MIR164a	Bol-C02: 42582788-42582909 +
SY-754	Bol-MIR164a	Bol-C02: 42582788-42582909 +	Brassica oleracea	Bol-MIR164c	Bol-C09: 3215110-3215229 +
SY-755	Bol-MIR164a	Bol-C02: 42582788-42582909 +	Brassica rapa	Bra-MIR164b	Bra-A02: 29559939-29560062 +
SY-756	Bol-MIR164a	Bol-C02: 42582788-42582909 +	Brassica rapa	Bra-MIR164c	Bra-A09: 2590117-2590236 -
SY-757	Bol-MIR164a	Bol-C02: 42582788-42582909 +	Brassica rapa	Bra-MIR164d	Bra-A06: 23205955-23206076 -
SY-758	Bol-MIR164a	Bol-C02: 42582788-42582909 +	Eutrema salsugineum	Esa-MIR164a	Esa-scaffold_6: 4116889-4117012 -

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.
Bol011125	0.5	0	NA
Bol017015	0.5	0	NA
Bol024555	0.5	0	NA
Bol043898	0.5	0	NA
Bol010251	1.0	1	NA
Bol017224	1.0	1	NA
Bol025747	1.0	1	NA
Bol035498	1.0	1	NA
Bol012152	2.0	2	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