PmiREN: Plant microRNA Encyclopedia

Cru-MIR156a

Basic info.

miRNA locus ID
Cru-MIR156a

miRNA locus accession
PmiREN002738

Organism
Capsella rubella

Genomic location
Cru-scaffold_4 2142098 2142223 -

Comments
A member of family MIR156

Confidence level

Secondary strurture and sequence

mature sequence star sequence

5'

3'

  GAGAGGAACACAAA    A        -    -         A   ---      TT     TAT
                AGAA CTGACAGA AGAG AGTGAGCAC CAA   AGGCAA  TGCAA   
                |||| |||||||| |||| ||||||||| |||   ||||||  |||||    
                TCTT GACTGTCT TCTC TCACTCGTG GTT   TTCGTT  ACGTT   
TTTTCTCTAGTCGTGA    A        A    G         C   CTC      -T     TAC

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-6	Aly-MIR156a	Aly-scaffold_4: 3693798-3693921 -	Capsella rubella	Cru-MIR156a	Cru-scaffold_4: 2142098-2142223 -
SY-392	Ath-MIR156a	Ath-Chr2: 10676450-10676573 -	Capsella rubella	Cru-MIR156a	Cru-scaffold_4: 2142098-2142223 -
SY-404	Ath-MIR156c	Ath-Chr4: 15415406-15415530 -	Capsella rubella	Cru-MIR156a	Cru-scaffold_4: 2142098-2142223 -
SY-885	Bra-MIR156f	Bra-A09: 38656170-38656292 +	Capsella rubella	Cru-MIR156a	Cru-scaffold_4: 2142098-2142223 -
SY-893	Bra-MIR156j	Bra-A01: 2925936-2926060 +	Capsella rubella	Cru-MIR156a	Cru-scaffold_4: 2142098-2142223 -
SY-904	Bra-MIR156o	Bra-A04: 13621955-13622077 -	Capsella rubella	Cru-MIR156a	Cru-scaffold_4: 2142098-2142223 -
SY-1197	Cru-MIR156a	Cru-scaffold_4: 2142098-2142223 -	Capsella rubella	Cru-MIR156d	Cru-scaffold_7: 3310268-3310392 +
SY-1198	Cru-MIR156a	Cru-scaffold_4: 2142098-2142223 -	Eutrema salsugineum	Esa-MIR156d	Esa-scaffold_15: 4948287-4948425 -
SY-1199	Cru-MIR156a	Cru-scaffold_4: 2142098-2142223 -	Eutrema salsugineum	Esa-MIR156f	Esa-scaffold_1: 3452779-3452903 +

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.0004s1548.1	0.5	1	NA
Carub.0001s2589.1	1.0	1	NA
Carub.0001s2590.1	1.0	NA	NA
Carub.0004s2454.1	1.0	1	NA
Carub.0005s2476.1	1.0	1	NA
Carub.0008s0542.1	1.0	1	NA
Carub.0008s1066.1	1.0	1	NA

Mature miRNA conservation

Link

No link
No link

Reference

No reference

Cru-MIR156a

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