PmiREN: Plant microRNA Encyclopedia

Cru-MIR397a

Basic info.

miRNA locus ID
Cru-MIR397a

miRNA locus accession
PmiREN002806

Organism
Capsella rubella

Genomic location
Cru-scaffold_6 14975608 14975750 +

Comments
A member of family MIR397

Confidence level

Secondary strurture and sequence

mature sequence star sequence

5'

3'

  T       T  -   T      C                A     C  C     TTCT      TGC     CT
   TCCTGGA TT GAA GAACAT ATTGAGTGCAGCGTTG TGTAA TT GTTTT    TTTGTT   TCCAT  
   ||||||| || ||| |||||| |||||||||||||||| ||||| || |||||    ||||||   |||||  A
   AGGACTT AA CTT TTTGTA TAACTCGCGTTGCGAC ACATT AA CGAAA    AGGTAA   AGGTA  
CTT       T  T   -      C                C     T  -     --TT      ---     TT

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-335	Aly-MIR397a	Aly-scaffold_6: 22804022-22804147 +	Capsella rubella	Cru-MIR397a	Cru-scaffold_6: 14975608-14975750 +
SY-683	Ath-MIR397a	Ath-Chr4: 2625940-2626068 +	Capsella rubella	Cru-MIR397a	Cru-scaffold_6: 14975608-14975750 +

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.0004s2005.1	0.5	1	NA
Carub.0004s1015.1	1.0	1	NA
Carub.0008s2072.1	1.0	NA	NA
Carub.0007s0356.1	2.0	NA	NA

Mature miRNA conservation

Link

No link
No link

Reference

No reference

Cru-MIR397a

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