PmiREN: Plant microRNA Encyclopedia

Mtr-MIR156a

Basic info.

miRNA locus ID
Mtr-MIR156a

miRNA locus accession
PmiREN011302

Organism
Medicago truncatula

Genomic location
Mtr-chr1 4043005 4043130 -

Comments
A member of family MIR156

Confidence level

Secondary strurture and sequence

mature sequence star sequence

5'

3'

   TCAATCGAGAGTAAG  A         -                    ACT    T T    TG
                  GG GGTGACAGA AGAGAGTGAGCACACATGGT   TTCG G ATGA  
                  || ||||||||| ||||||||||||||||||||   |||| | ||||   
                  CC CCACTGTCT TCTCTCACTCGTGTGTATCG   AAGC C TACT  
TTTCTTTTTCTACCACTA  -         A                    ---    T T    TT

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: 3713
Chromosome: Mtr-chr1
Cluster start: 4043005
Cluster end: 4043114

miRNA locus ID	miRNA locus accession	Chromosome	Strand	Start	End
Mtr-MIR156a , Mtr-MIR156b	PmiREN011302, PmiREN011307	Mtr-chr1	-	4043005	4043114

miRNA syntenic block

Syntenic block ID	miRNA locus 1	miRNA locus 1 position	Organism	miRNA locus 2	miRNA locus 2 position
SY-1362	Mtr-MIR156a	Mtr-chr1: 4043005-4043130 -	Phaseolus vulgaris	Pvu-MIR156e	Pvu-Chr01: 3534547-3534677 +

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.
Medtr1g053715.1	1.0	1	NA
Medtr2g461920.1	1.0	NA	NA
Medtr3g085180.1	1.0	NA	NA
Medtr3g099080.1	1.0	1	NA
Medtr4g109770.1	1.0	NA	NA
Medtr5g046670.1	1.0	1	NA
Medtr7g092930.1	1.0	NA	NA
Medtr7g444860.1	1.0	1	NA
Medtr8g080680.1	1.0	1	NA
Medtr8g080690.1	1.0	1	NA
Medtr8g096780.1	1.0	1	NA
Medtr3g071560.1	1.5	2	NA
Medtr8g080670.1	1.5	1	NA
Medtr1g036390.2	2.0	2	NA
Medtr2g014200.1	2.0	1	NA

Mature miRNA conservation

Link

Reference

>Genome-Wide Identification of microRNAs in Response to Salt/Alkali Stress in Medicago truncatula through High-Throughput Sequencing. Int J Mol Sci, 2018

>Comparative transcriptome investigation of global gene expression changes caused by miR156 overexpression in Medicago sativa. BMC Genomics, 2016

>Cleavage of a non-conserved target by a specific miR156 isoform in root apexes of Medicago truncatula. Plant Signal Behav, 2010