PmiREN: Plant microRNA Encyclopedia

Esa-MIR408

Basic info.

miRNA locus ID
Esa-MIR408

miRNA locus accession
PmiREN005662

Organism
Eutrema salsugineum

Genomic location
Esa-scaffold_22 1478341 1478467 +

Comments
A member of family MIR408

Confidence level

Secondary strurture and sequence

mature sequence star sequence

5'

3'

CAAAATGGTAAC    C   ------       CAA    A      ATT   TTT  T      T  AAC
            GAGA AGA      CAGGGAA   GCAG GCATGG   GAG   AC AAAACA CA   
            |||| |||      |||||||   |||| ||||||   |||   || |||||| ||    
            CTCT TCT      GTCCCTT   CGTC CGTACC   CTC   TG TTTTGT GT   
    TCTCTTCT    T   CCCTCG       CTC    A      CTT   ---  -      -  CAG

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-367	Aly-MIR408	Aly-scaffold_4: 22869881-22870007 +	Eutrema salsugineum	Esa-MIR408	Esa-scaffold_22: 1478341-1478467 +
SY-709	Ath-MIR408	Ath-Chr2: 19319846-19319974 +	Eutrema salsugineum	Esa-MIR408	Esa-scaffold_22: 1478341-1478467 +
SY-1188	Bra-MIR408	Bra-A05: 469138-469268 -	Eutrema salsugineum	Esa-MIR408	Esa-scaffold_22: 1478341-1478467 +
SY-1262	Cru-MIR408	Cru-scaffold_4: 14640170-14640296 +	Eutrema salsugineum	Esa-MIR408	Esa-scaffold_22: 1478341-1478467 +

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.
Thhalv10001468m	0.0	0	NA
Thhalv10005123m	1.0	1	NA

Mature miRNA conservation

Link

No link
No link

Reference

No reference

Esa-MIR408

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