PmiREN: Plant microRNA Encyclopedia

Mtr-MIR171j

Basic info.

miRNA locus ID
Mtr-MIR171j

miRNA locus accession
PmiREN011396

Organism
Medicago truncatula

Genomic location
Mtr-chr4 55239583 55239700 -

Comments
A member of family MIR171

Confidence level

Secondary strurture and sequence

mature sequence star sequence

5'

3'

  ACAGCTAGTTGAGATGA                       -- G    T      ATAA
                   GATATTGGTGCGGTTCAATCAGA  A GCAG GCTTTT    
                   |||||||||||||||||||||||  | |||| ||||||     
                   CTATAACCGTGCCGAGTTAGTTT  T TGTC CGAAAA    
GACACGGACTAATTGTGCA                       AT G    T      ACTT

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: 3750
Chromosome: Mtr-chr4
Cluster start: 55239583
Cluster end: 55239689

miRNA locus ID	miRNA locus accession	Chromosome	Strand	Start	End
Mtr-MIR171f , Mtr-MIR171j	PmiREN011410, PmiREN011396	Mtr-chr4	-	55239583	55239689

miRNA syntenic block

Syntenic block ID	miRNA locus 1	miRNA locus 1 position	Organism	miRNA locus 2	miRNA locus 2 position
SY-1311	Gma-MIR171f	Gma-Gm15: 8464103-8464218 -	Medicago truncatula	Mtr-MIR171j	Mtr-chr4: 55239583-55239700 -
SY-1314	Gma-MIR171q	Gma-Gm17: 1007454-1007571 +	Medicago truncatula	Mtr-MIR171j	Mtr-chr4: 55239583-55239700 -
SY-1378	Mtr-MIR171d	Mtr-chr2: 8261767-8262028 -	Medicago truncatula	Mtr-MIR171j	Mtr-chr4: 55239583-55239700 -
SY-1379	Mtr-MIR171j	Mtr-chr4: 55239583-55239700 -	Phaseolus vulgaris	Pvu-MIR171e	Pvu-Chr03: 12716641-12716763 -

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.
Medtr0092s0100.2	1.5	NA	NA
Medtr7g026973.1	2.0	2	NA

Mature miRNA conservation

Link

Reference

>Identification of Arbuscular Mycorrhiza (AM)-Responsive microRNAs in Tomato. Front Plant Sci, 2016

>Two direct targets of cytokinin signaling regulate symbiotic nodulation in Medicago truncatula. Plant Cell, 2012

>Distribution pattern of small RNA and degradome reads provides information on miRNA gene structure and regulation. Plant Signal Behav, 2011