PmiREN: Plant microRNA Encyclopedia

Cru-MIR169b

Basic info.

miRNA locus ID
Cru-MIR169b

miRNA locus accession
PmiREN002770

Organism
Capsella rubella

Genomic location
Cru-scaffold_3 4933472 4933619 -

Comments
A member of family MIR169

Confidence level

Secondary strurture and sequence

mature sequence star sequence

5'

3'

   A       A        ATT         AT          TTT     ACAACCGGTTTATGACCATTGATT
  G AGGAATA AGAATGGA   GAGCCAAGG  GACTTGCCGG   TAAAC                        
  | ||||||| ||||||||   |||||||||  ||||||||||   |||||                         
  C TTCTTAT TCTTGCTT   CTCGGTTCC  TTGAACGGTC   GTGTT                        
TA C       C        CCT         AG          --T     TAGTTGTCTAACACTTACTCTGGT

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-203	Aly-MIR169f	Aly-scaffold_3: 6024155-6024301 -	Capsella rubella	Cru-MIR169b	Cru-scaffold_3: 4933472-4933619 -
SY-567	Ath-MIR169f	Ath-Chr3: 4805693-4805839 -	Capsella rubella	Cru-MIR169b	Cru-scaffold_3: 4933472-4933619 -
SY-1195	Bra-MIRN366	Bra-A01: 26728863-26729051 +	Capsella rubella	Cru-MIR169b	Cru-scaffold_3: 4933472-4933619 -

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.0003s0503.1	1.5	NA	NA
Carub.0007s3046.1	2.0	NA	NA
Carub.0008s1615.1	2.0	NA	NA

Mature miRNA conservation

Link

No link
No link

Reference

>Microsynteny and phylogenetic analysis of tandemly organised miRNA families across five members of Brassicaceae reveals complex retention and loss history. Plant Sci, 2016