PmiREN: Plant microRNA Encyclopedia

Cru-MIR393b

Basic info.

miRNA locus ID
Cru-MIR393b

miRNA locus accession
PmiREN002791

Organism
Capsella rubella

Genomic location
Cru-scaffold_5 10912783 10912975 +

Comments
A member of family MIR393

Confidence level

Secondary strurture and sequence

mature sequence star sequence

5'

3'

  CAC   A       AAA                   T     T  T   GCTGATTTATTCCTTAACAATTGTTCTTTTGTTCTTCTTCTTTGTCAT
     AGC ACTAGAG   GGATCCAAAGGGATCGCAT GATCC GA TAA                                                
     ||| |||||||   ||||||||||||||||||| ||||| || |||                                                 
     TCG TGGTTTC   CTTAGGTTTCTCTAGCGTA CTAGG CC TTT                                                
CATCT   A       CTA                   -     -  -   TTCTTTGGTTTTTGAAACCCCCCAAAACAAAGAAAAGGGGTAGAAAGT

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-300	Aly-MIR393b	Aly-scaffold_5: 17660783-17660959 +	Capsella rubella	Cru-MIR393b	Cru-scaffold_5: 10912783-10912975 +
SY-652	Ath-MIR393b	Ath-Chr3: 20691637-20691818 +	Capsella rubella	Cru-MIR393b	Cru-scaffold_5: 10912783-10912975 +
SY-874	Bol-MIR393	Bol-C04: 22919381-22919540 -	Capsella rubella	Cru-MIR393b	Cru-scaffold_5: 10912783-10912975 +
SY-1124	Bra-MIR393a	Bra-A04: 19205419-19205573 +	Capsella rubella	Cru-MIR393b	Cru-scaffold_5: 10912783-10912975 +
SY-1130	Bra-MIR393c	Bra-A09: 35133997-35134164 +	Capsella rubella	Cru-MIR393b	Cru-scaffold_5: 10912783-10912975 +
SY-1135	Bra-MIR393d	Bra-A04: 2672059-2672220 -	Capsella rubella	Cru-MIR393b	Cru-scaffold_5: 10912783-10912975 +
SY-1138	Bra-MIR393e	Bra-A07: 16290941-16291110 +	Capsella rubella	Cru-MIR393b	Cru-scaffold_5: 10912783-10912975 +
SY-1245	Cru-MIR393a	Cru-scaffold_4: 11771167-11771330 +	Capsella rubella	Cru-MIR393b	Cru-scaffold_5: 10912783-10912975 +
SY-1248	Cru-MIR393b	Cru-scaffold_5: 10912783-10912975 +	Eutrema salsugineum	Esa-MIR393b	Esa-scaffold_16: 74485-74658 -

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.0001s1256.1	1.0	NA	NA
Carub.0005s0486.1	1.0	NA	NA
Carub.0005s2963.1	1.0	NA	NA
Carub.0006s3387.1	2.0	NA	NA

Mature miRNA conservation

Link

No link
No link

Reference

No reference

Cru-MIR393b

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