PmiREN: Plant microRNA Encyclopedia

Cru-MIR319c

Basic info.

miRNA locus ID
Cru-MIR319c

miRNA locus accession
PmiREN002786

Organism
Capsella rubella

Genomic location
Cru-scaffold_7 15441258 15441467 +

Comments
A member of family MIR319

Confidence level

Secondary strurture and sequence

mature sequence star sequence

5'

3'

TGCTGGGTTGGT         ----------                 CT       TAATAT    -         -GA      AC        C  AA     A   AA  AAT
            GGAGGAAGA          GAGCTTTCTTCGGTCCA  CATGGAG      GTGA GATTTAATT   CTCTCG  TCATTCAT CA  TACCA ATG  AG   
            |||||||||          |||||||||||||||||  |||||||      |||| |||||||||   ||||||  |||||||| ||  ||||| |||  ||    
            TCTCTTTTT          CTCGAGGGAAGTCAGGT  GTATCTC      CACT CTGAGTTAA   GAGAGC  AGTAAGTG GT  ATGGT TAC  TC   
        AATG         ATTTTTATCC                 TC       ----TT    T         ACA      GT        A  AA     A   GC  GTA

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-273	Aly-MIR319b	Aly-scaffold_7: 21388808-21389017 +	Capsella rubella	Cru-MIR319c	Cru-scaffold_7: 15441258-15441467 +
SY-623	Ath-MIR319b	Ath-Chr5: 16660449-16660658 -	Capsella rubella	Cru-MIR319c	Cru-scaffold_7: 15441258-15441467 +
SY-1089	Bra-MIR319b	Bra-A04: 10646026-10646235 -	Capsella rubella	Cru-MIR319c	Cru-scaffold_7: 15441258-15441467 +
SY-1093	Bra-MIR319e	Bra-A07: 15294081-15294290 -	Capsella rubella	Cru-MIR319c	Cru-scaffold_7: 15441258-15441467 +
SY-1242	Cru-MIR319c	Cru-scaffold_7: 15441258-15441467 +	Eutrema salsugineum	Esa-MIR319b	Esa-scaffold_14: 2396373-2396581 +

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.0003s1076.1	1.5	NA	NA
Carub.0004s0744.1	1.5	2	NA
Carub.0006s0497.1	1.5	NA	NA

Mature miRNA conservation

Link

No link
No link

Reference

>Microsynteny analysis to understand evolution and impact of polyploidization on MIR319 family within Brassicaceae. Dev Genes Evol, 2018

>Comparative analysis of the MIR319a microRNA locus in Arabidopsis and related Brassicaceae. Mol Biol Evol, 2008