PmiREN: Plant microRNA Encyclopedia

Cru-MIR399c

Basic info.

miRNA locus ID
Cru-MIR399c

miRNA locus accession
PmiREN002813

Organism
Capsella rubella

Genomic location
Cru-scaffold_1 9994925 9995062 +

Comments
A member of family MIR399

Confidence level

Secondary strurture and sequence

mature sequence star sequence

5'

3'

  AAA    --    TGC     A     A       A        A   -      TTT  T TT    GCTC
     GGTG  GAAA   ATTAC GGGTA GATCTCT TTGGCAGG AAC CATTAC   GA C  TGCA    
     ||||  ||||   ||||| ||||| ||||||| |||||||| ||| ||||||   || |  ||||     
     CCAC  CTTT   TAATG CCCGT TTAGAGG AACCGTCT TTG GTGATG   TT G  ACGT    
TATAA    GT    --T     G     -       A        C   A      --T  C TT    ATTT

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: 3278
Chromosome: Cru-scaffold_1
Cluster start: 9989761
Cluster end: 9995062

miRNA locus ID	miRNA locus accession	Chromosome	Strand	Start	End
Cru-MIR399b , Cru-MIR399c	PmiREN002812, PmiREN002813	Cru-scaffold_1	+	9989761	9995062

miRNA syntenic block

No syntenic block.

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.0004s1541.1	1.0	NA	NA
Carub.0001s1147.1	2.0	NA	NA

Mature miRNA conservation

Link

No link
No link

Reference

No reference

Cru-MIR399c

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