PmiREN: Plant microRNA Encyclopedia

Cru-MIR396b

Basic info.

miRNA locus ID
Cru-MIR396b

miRNA locus accession
PmiREN002805

Organism
Capsella rubella

Genomic location
Cru-scaffold_7 13784082 13784252 +

Comments
A member of family MIR396

Confidence level

Secondary strurture and sequence

mature sequence star sequence

5'

3'

TGA        -----     AC                   A     --C       CAT     TA     -   TAAACATGTATAGCTA
   AGATCCTG     GTCAT  TTTTCCACAGCTTTCTTGA CTTTT   TTTTTTG   TTTCC  TAGTT TAC                
   ||||||||     |||||  ||||||||||||||||||| |||||   |||||||   |||||  ||||| |||                 
   TTTGGGAC     CAGTA  AAAGGGTGTCGAAAGAACT GAAAA   AAGAAAC   AAAGG  TTTTC AGA                
           TTAAA     CA                   C     ACA       ---     -T     G   TTAATATCTAAGAAAA

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-332	Aly-MIR396b	Aly-scaffold_7: 18203546-18203709 +	Capsella rubella	Cru-MIR396b	Cru-scaffold_7: 13784082-13784252 +
SY-681	Ath-MIR396b	Ath-Chr5: 13611788-13611944 +	Capsella rubella	Cru-MIR396b	Cru-scaffold_7: 13784082-13784252 +
SY-1159	Bra-MIR396a	Bra-A08: 8513338-8513490 +	Capsella rubella	Cru-MIR396b	Cru-scaffold_7: 13784082-13784252 +
SY-1256	Cru-MIR396b	Cru-scaffold_7: 13784082-13784252 +	Eutrema salsugineum	Esa-MIR396b	Esa-scaffold_18: 2696056-2696216 +

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.0006s2418.1	2.0	NA	NA

Mature miRNA conservation

Link

No link
No link

Reference

No reference

Cru-MIR396b

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