PmiREN: Plant microRNA Encyclopedia

Osa-MIR171a

Basic info.

miRNA locus ID
Osa-MIR171a

miRNA locus accession
PmiREN014216

Organism
Oryza sativa

Genomic location
Osa-Chr6 25891120 25891241 +

Comments
A member of family MIR171

Confidence level

Secondary strurture and sequence

mature sequence star sequence

5'

3'

 TGGTT   CAAT   A  --  C          A         C   G           AGC
      GAT    GGA AG  AG GATATTGGTG GGTTCAATC GAT ATTGGTTTTAC   
      |||    ||| ||  || |||||||||| ||||||||| ||| |||||||||||   A
      CTA    CCT TC  TC CTATAACCGC CCGAGTTAG CTA TGACTAAAATG   
TTCGTC   -TAT   C  CT  T          G         T   -           GTG

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-1480	Bdi-MIR171e	Bdi-Bd1: 30950292-30950407 -	Oryza sativa	Osa-MIR171a	Osa-Chr6: 25891120-25891241 +

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.
LOC_Os02g44370.1	0.0	NA	0 (25)
LOC_Os06g01620.1	0.0	NA	0 (13)
LOC_Os10g40390.1	0.0	NA	0 (15)
LOC_Os02g51900.1	NA	NA	0 (6)
LOC_Os01g56350.3	NA	NA	1 (2)
LOC_Os04g13210.1	NA	NA	1 (4)
LOC_Os09g31466.1	4.0	NA	2 (4)
LOC_Os11g05660.1	4.0	NA	2 (3)
LOC_Os01g42294.1	4.5	NA	2 (1)
LOC_Os01g47540.1	4.5	NA	2 (3)
LOC_Os05g02820.1	4.5	NA	2 (1)
LOC_Os05g23880.1	4.5	NA	2 (2)
LOC_Os01g08270.1	NA	NA	2 (4)
LOC_Os01g22990.1	NA	NA	2 (5)
LOC_Os01g71320.1	NA	NA	2 (1)
LOC_Os02g20040.1	NA	NA	2 (1)
LOC_Os03g05620.1	NA	NA	2 (1)
LOC_Os03g15230.1	NA	NA	2 (1)
LOC_Os03g21000.1	NA	NA	2 (6)
LOC_Os03g25850.1	NA	NA	2 (1)
LOC_Os03g50530.1	NA	NA	2 (2)
LOC_Os04g50990.1	NA	NA	2 (6)
LOC_Os04g55520.1	NA	NA	2 (4)
LOC_Os05g04170.1	NA	NA	2 (5)
LOC_Os05g22614.1	NA	NA	2 (9)
LOC_Os05g23530.4	NA	NA	2 (1)
LOC_Os06g05750.1	NA	NA	2 (6)
LOC_Os06g13050.1	NA	NA	2 (5)
LOC_Os07g09040.1	NA	NA	2 (3)
LOC_Os07g34589.2	NA	NA	2 (18)
LOC_Os07g47100.2	NA	NA	2 (5)
LOC_Os08g36150.1	NA	NA	2 (5)
LOC_Os09g10690.1	NA	NA	2 (3)
LOC_Os09g15430.3	NA	NA	2 (1)
LOC_Os10g34920.1	NA	NA	2 (1)
LOC_Os11g17930.1	NA	NA	2 (2)
LOC_Os12g13390.1	NA	NA	2 (2)
LOC_Os02g44360.1	0.0	NA	NA
LOC_Os04g46860.1	0.0	NA	NA

Mature miRNA conservation

Link

Reference

>Unravelling miRNA regulation in yield of rice (Oryza sativa) based on differential network model. Sci Rep, 2018

>Regulation of rice root development by a retrotransposon acting as a microRNA sponge. Elife, 2017

>Differential expression of microRNAs by arsenate and arsenite stress in natural accessions of rice. Metallomics, 2015

>Genome-wide identification and analysis of drought-responsive microRNAs in Oryza sativa. J Exp Bot, 2010

>OsRecQ1, a QDE-3 homologue in rice, is required for RNA silencing induced by particle bombardment for inverted repeat DNA, but not for double-stranded RNA. Plant J, 2008