PmiREN: Plant microRNA Encyclopedia

Esa-MIR164a

Basic info.

miRNA locus ID
Esa-MIR164a

miRNA locus accession
PmiREN005605

Organism
Eutrema salsugineum

Genomic location
Esa-scaffold_6 4116889 4117012 -

Comments
A member of family MIR164

Confidence level

Secondary strurture and sequence

mature sequence star sequence

5'

3'

  AAT   T   TA    T  C     A  C             GCAC     A    TATCGGT
     GGG GAG  ACAC TG TGGAG AG AGGGCACGTGCGA    AAATG GATC       
     ||| |||  |||| || ||||| || |||||||||||||    ||||| ||||        
     CCC CTC  TGTG AC ACCTC TC TCTTGTGCACGCT    TTTAT CTAG       
CCCCT   C   TG    C  A     C  A             ----     A    TTGTACA

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-98	Aly-MIR164c	Aly-scaffold_6: 12607206-12607329 -	Eutrema salsugineum	Esa-MIR164a	Esa-scaffold_6: 4116889-4117012 -
SY-484	Ath-MIR164c	Ath-Chr5: 9852664-9852787 +	Eutrema salsugineum	Esa-MIR164a	Esa-scaffold_6: 4116889-4117012 -
SY-758	Bol-MIR164a	Bol-C02: 42582788-42582909 +	Eutrema salsugineum	Esa-MIR164a	Esa-scaffold_6: 4116889-4117012 -
SY-765	Bol-MIR164c	Bol-C09: 3215110-3215229 +	Eutrema salsugineum	Esa-MIR164a	Esa-scaffold_6: 4116889-4117012 -
SY-949	Bra-MIR164b	Bra-A02: 29559939-29560062 +	Eutrema salsugineum	Esa-MIR164a	Esa-scaffold_6: 4116889-4117012 -
SY-950	Bra-MIR164c	Bra-A09: 2590117-2590236 -	Eutrema salsugineum	Esa-MIR164a	Esa-scaffold_6: 4116889-4117012 -
SY-952	Bra-MIR164d	Bra-A06: 23205955-23206076 -	Eutrema salsugineum	Esa-MIR164a	Esa-scaffold_6: 4116889-4117012 -
SY-1215	Cru-MIR164b	Cru-scaffold_6: 9492853-9492985 -	Eutrema salsugineum	Esa-MIR164a	Esa-scaffold_6: 4116889-4117012 -

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.
Thhalv10004550m	0.5	1	NA
Thhalv10014081m	0.5	1	NA
Thhalv10011659m	1.0	1	NA
Thhalv10013863m	1.0	1	NA
Thhalv10021186m	1.0	1	NA
Thhalv10021297m	1.0	1	NA
Thhalv10027326m	1.5	2	NA
Thhalv10004583m	2.0	2	NA
Thhalv10021393m	2.0	2	NA
Thhalv10027479m	2.0	2	NA
Thhalv10027874m	2.0	2	NA

Mature miRNA conservation

Link

No link
No link

Reference

No reference

Esa-MIR164a

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