PmiREN: Plant microRNA Encyclopedia

Ath-MIR157c

Basic info.

miRNA locus ID
Ath-MIR157c

miRNA locus accession
PmiREN000643

Organism
Arabidopsis thaliana

Genomic location
Ath-Chr3 6244507 6244713 -

Comments
A member of family MIR157

Confidence level

Secondary strurture and sequence

mature sequence star sequence

5'

3'

TTTG    ------T    TT   T  T        -           TAAGGATGACATGCAAGTAC       - A    ---   ACACCGCATGTGGATGATAAAATATGTATAACAA
    AGAG       GATG  GGT GT GACAGAAG ATAGAGAGCAC                    ATACATA T TATC   ATC                                  
    ||||       ||||  ||| || |||||||| |||||||||||                    ||||||| | ||||   |||                                   
    TCTC       CTAT  CCA CA CTGTCTTC TATCTCTCGTG                    TTTTCTC T CTCT   TCC                                  
        TTCTTCT    TT   C  -        A           --------------------       A -    ACG   AAGAGAGAGAAAGAGAGGGAGAGAAAGAAACTTA

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-40	Aly-MIR157c	Aly-scaffold_3: 7799883-7800109 -	Arabidopsis thaliana	Ath-MIR157c	Ath-Chr3: 6244507-6244713 -
SY-49	Aly-MIR157d	Aly-scaffold_1: 24813797-24814014 -	Arabidopsis thaliana	Ath-MIR157c	Ath-Chr3: 6244507-6244713 -
SY-425	Ath-MIR157c	Ath-Chr3: 6244507-6244713 -	Brassica oleracea	Bol-MIR157	Bol-C01: 31679965-31680103 +
SY-426	Ath-MIR157c	Ath-Chr3: 6244507-6244713 -	Brassica rapa	Bra-MIR157a	Bra-A03: 18966005-18966200 -
SY-427	Ath-MIR157c	Ath-Chr3: 6244507-6244713 -	Brassica rapa	Bra-MIR157b	Bra-A01: 25099108-25099295 +
SY-428	Ath-MIR157c	Ath-Chr3: 6244507-6244713 -	Capsella rubella	Cru-MIR157a	Cru-scaffold_1: 16709634-16709856 -
SY-429	Ath-MIR157c	Ath-Chr3: 6244507-6244713 -	Capsella rubella	Cru-MIR157b	Cru-scaffold_3: 6365381-6365595 -
SY-430	Ath-MIR157c	Ath-Chr3: 6244507-6244713 -	Eutrema salsugineum	Esa-MIR157a	Esa-scaffold_13: 3051829-3052046 +
SY-431	Ath-MIR157d	Ath-Chr1: 18026817-18027028 -	Arabidopsis thaliana	Ath-MIR157c	Ath-Chr3: 6244507-6244713 -

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.
AT1G27360.1	1.5	1	0 (2)
AT1G27370.1	1.5	NA	1 (3)
AT2G42200.1	1.5	1	2 (1)
AT5G50570.1	2.5	1	2 (2)
AT3G21200.1	4.0	2	2 (1)
AT1G43670.1	NA	NA	2 (2)
AT2G03150.1	NA	NA	2 (2)
AT2G30010.1	NA	2	2 (3)
AT3G53920.1	NA	NA	2 (1)
AT4G16520.1	NA	NA	2 (3)
AT5G66450.1	NA	NA	2 (1)
AT3G57920.1	1.5	1	NA
AT5G43270.2	1.5	1	NA
AT1G69170.1	2.0	1	NA
AT2G45990.1	2.0	2	NA
AT5G08620.1	2.0	NA	NA

Mature miRNA conservation

Link

Reference

>Threshold-dependent repression of SPL gene expression by miR156/miR157 controls vegetative phase change in Arabidopsis thaliana. PLoS Genet, 2018

>MicroRNAs Are Intensively Regulated during Induction of Somatic Embryogenesis in Arabidopsis. Front Plant Sci, 2017

>Significant sequence similarities in promoters and precursors of Arabidopsis thaliana non-conserved microRNAs. Bioinformatics, 2006