PmiREN: Plant microRNA Encyclopedia

Aly-MIR168a

Basic info.

miRNA locus ID
Aly-MIR168a

miRNA locus accession
PmiREN000448

Organism
Arabidopsis lyrata

Genomic location
Aly-scaffold_7 10245612 10245757 -

Comments
A member of family MIR168

Confidence level

Secondary strurture and sequence

mature sequence star sequence

5'

3'

  TCT    G     -C  G      C          T     A       -     ACACAGCCTCGTGACTTT
     CACC TCGGG  TC GATTCG TTGGTGCAGG CGGGA CCAATTC GGCTG                  
     |||| |||||  || |||||| |||||||||| ||||| ||||||| |||||                  A
     GTGG AGCCC  AG CTAAGT AACTACGTTC GCCCT GGTTAGG ACGAG                  
AGAAT    -     CT  G      C          C     A       G     TGTTTGGTTATTTCCAAA

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-166	Aly-MIR168a	Aly-scaffold_7: 10245612-10245757 -	Arabidopsis lyrata	Aly-MIR168b	Aly-scaffold_8: 2067209-2067339 +
SY-167	Aly-MIR168a	Aly-scaffold_7: 10245612-10245757 -	Arabidopsis thaliana	Ath-MIR168a	Ath-Chr4: 10578632-10578777 +
SY-168	Aly-MIR168a	Aly-scaffold_7: 10245612-10245757 -	Arabidopsis thaliana	Ath-MIR168b	Ath-Chr5: 18358783-18358913 -
SY-169	Aly-MIR168a	Aly-scaffold_7: 10245612-10245757 -	Brassica oleracea	Bol-MIR168b	Bol-C07: 41430765-41430906 +
SY-170	Aly-MIR168a	Aly-scaffold_7: 10245612-10245757 -	Brassica oleracea	Bol-MIR168c	Bol-C09: 7067563-7067703 -
SY-171	Aly-MIR168a	Aly-scaffold_7: 10245612-10245757 -	Brassica rapa	Bra-MIR168b	Bra-A01: 5436066-5436205 +
SY-172	Aly-MIR168a	Aly-scaffold_7: 10245612-10245757 -	Brassica rapa	Bra-MIR168c	Bra-Scaffold87669: 166114-166244 +
SY-173	Aly-MIR168a	Aly-scaffold_7: 10245612-10245757 -	Brassica rapa	Bra-MIR168d	Bra-A08: 12072881-12073020 -
SY-174	Aly-MIR168a	Aly-scaffold_7: 10245612-10245757 -	Brassica rapa	Bra-MIR168f	Bra-A09: 13356294-13356434 -
SY-175	Aly-MIR168a	Aly-scaffold_7: 10245612-10245757 -	Capsella rubella	Cru-MIR168a	Cru-scaffold_7: 8258806-8258945 -
SY-176	Aly-MIR168a	Aly-scaffold_7: 10245612-10245757 -	Capsella rubella	Cru-MIR168b	Cru-scaffold_8: 1121379-1121509 +
SY-177	Aly-MIR168a	Aly-scaffold_7: 10245612-10245757 -	Eutrema salsugineum	Esa-MIR168b	Esa-scaffold_1: 8872731-8872872 -
SY-178	Aly-MIR168a	Aly-scaffold_7: 10245612-10245757 -	Eutrema salsugineum	Esa-MIR168c	Esa-scaffold_20: 1047212-1047352 -

Expression info.

Mature miRNA expression [+]

Reads per million (RPM)

star miRNA expression [+]

Reads per million (RPM)

Target gene info.[+]

No target gene.

Mature miRNA conservation

Link

Reference

No reference

Aly-MIR168a

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