PmiREN: Plant microRNA Encyclopedia

Cru-MIR164b

Basic info.

miRNA locus ID
Cru-MIR164b

miRNA locus accession
PmiREN002753

Organism
Capsella rubella

Genomic location
Cru-scaffold_6 9492853 9492985 -

Comments
A member of family MIR164

Confidence level

Secondary strurture and sequence

mature sequence star sequence

5'

3'

  AAT   T   TA    T  A     A  C              AACGCAAAATGAGATC     T    TG
     GGA GAG  ACAC TG TGGAG AG AGGGCACGTGCGAG                GATCG TACG  
     ||| |||  |||| || ||||| || ||||||||||||||                ||||| ||||   
     CCT CTC  TGTG AC ACCTC TC TCTTGTGCACGCTT                CTAGT ATGC  
CCCAT   T   TC    C  A     C  A              -----------GTATC     C    AT

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-97	Aly-MIR164c	Aly-scaffold_6: 12607206-12607329 -	Capsella rubella	Cru-MIR164b	Cru-scaffold_6: 9492853-9492985 -
SY-483	Ath-MIR164c	Ath-Chr5: 9852664-9852787 +	Capsella rubella	Cru-MIR164b	Cru-scaffold_6: 9492853-9492985 -
SY-1215	Cru-MIR164b	Cru-scaffold_6: 9492853-9492985 -	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.
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