PmiREN: Plant microRNA Encyclopedia

Cru-MIR164a

Basic info.

miRNA locus ID
Cru-MIR164a

miRNA locus accession
PmiREN002752

Organism
Capsella rubella

Genomic location
Cru-scaffold_4 14858719 14858835 +

Comments
A member of family MIR164

Confidence level

Secondary strurture and sequence

mature sequence star sequence

5'

3'

   GC       AAT   CAC          CA   C         C  A  AACAC  AA
     GGGTGAG   CTC   GTTGGAGAAG  GGG ACGTGCAAA CA CA     GA  
     |||||||   |||   ||||||||||  ||| ||||||||| || ||     ||  C
     CCCACTC   GAG   CAACCTCTTC  CTC TGCACGTTT GT GT     CT  
GGTTA       CTC   -TA          CC   A         C  -  -ACTC  CC

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-90	Aly-MIR164a	Aly-scaffold_4: 23120157-23120273 +	Capsella rubella	Cru-MIR164a	Cru-scaffold_4: 14858719-14858835 +
SY-474	Ath-MIR164a	Ath-Chr2: 19520750-19520869 +	Capsella rubella	Cru-MIR164a	Cru-scaffold_4: 14858719-14858835 +
SY-945	Bra-MIR164a	Bra-A05: 199663-199779 -	Capsella rubella	Cru-MIR164a	Cru-scaffold_4: 14858719-14858835 +
SY-954	Bra-MIR164e	Bra-A04: 21524409-21524525 +	Capsella rubella	Cru-MIR164a	Cru-scaffold_4: 14858719-14858835 +
SY-1214	Cru-MIR164a	Cru-scaffold_4: 14858719-14858835 +	Eutrema salsugineum	Esa-MIR164b	Esa-scaffold_22: 1698371-1698492 +

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