Stem-loop sequence aly-MIR169m

Accession

MI0014557 (change log)

Description

Arabidopsis lyrata miR169m stem-loop

Gene family

MIPF0000012; MIR169_1

Stem-loop

   ---ucauuauuua     -a      aa      -         u     uu  -          u    u    -  u    ----              auugucauguuugacaagug 
5'              gaagg  aauguc  agauga auaggagaa cauau  gg uagccaagga gacu gccu gu ucuu    ugaguaaaaugguu                    a
                |||||  ||||||  |||||| ||||||||| |||||  || |||||||||| |||| |||| || ||||    ||||||||||||||                     
3'              cuucc  uugcag  ucuacu ugucuucuu guaua  cc aucgguucuu cuga cgga ua agaa    acucauuuuaccag                    c
   agaauaaaaucua     aa      ac      c         -     uu  u          -    -    g  c    aacu              caaugaacuauauugaauau 

Deep sequencing

32 reads, 900 reads per million, 1 experiments

Confidence

Annotation confidence: not enough data

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Genome context

• Coordinates (v1.0; GCA_000004255.1): GL348717.1: 3151345-3151574 [-]
• Overlapping transcripts:

  intergenic

Clustered miRNAs

< 10kb from aly-MIR169m

• aly-MIR169n: GL348717.1: 3151664-3151915 [-]
• aly-MIR169m: GL348717.1: 3151345-3151574 [-]
• aly-MIR169l: GL348717.1: 3149048-3149319 [-]
• aly-MIR169k: GL348717.1: 3143745-3143947 [-]

Database links

• miRBase Tracker:MI0014557

Mature sequence aly-miR169m-5p

• Accession: MIMAT0017509
• Previous IDs: aly-miR169m
• Sequence: 50 - uagccaaggaugacuugccug - 70
• Deep sequencing: 31 reads, 1 experiments
• Evidence: experimental; Illumina [1], SOLiD [2]

Mature sequence aly-miR169m-3p

• Accession: MIMAT0017510
• Previous IDs: aly-miR169m*
• Sequence: 160 - ggcagucuucuuggcuauc - 178
• Evidence: experimental; Illumina [1], SOLiD [2]

References

1. PMID:20407027 "MicroRNA gene evolution in Arabidopsis lyrata and Arabidopsis thaliana" Fahlgren N, Jogdeo S, Kasschau KD, Sullivan CM, Chapman EJ, Laubinger S, Smith LM, Dasenko M, Givan SA, Weigel D, Carrington JC Plant Cell. 22:1074-1089(2010).
2. PMID:20407023 "Arabidopsis lyrata small RNAs: transient MIRNA and small interfering RNA loci within the Arabidopsis genus" Ma Z, Coruh C, Axtell MJ Plant Cell. 22:1090-1103(2010).