miRBase entry: sly-MIR5300

Stem-loop sly-MIR5300


Accession
MI0018477
Description
Solanum lycopersicum sly-MIR5300 precursor miRNA

Literature search
4 open access papers mention sly-MIR5300
(13 sentences)

Sequence

ugaccaaaauucuucuUCCCCAGUCCAGGCAUUCCAACaguugauaacaucuagaucugccaauacuuuguauuuuuguucuucuauuuuucacaugacaucuucaaaaucuacuaugagcuucaucauaagcuaagaaauggugaguuuugaugaugugaugccuaaaauaggauuaaaugaaaguacuaguaaaaagguguucagaucuggagguuauguuaagcuggugguaugcuuugauugggaaagaugacuuagguca
(((((.....((.((((.(((((((.((((((.(((.((((..(((((.((((((((((..(((((((((((((((((((.(((((((((...(((.(((((.(((((((.((((((.(((((......))))).....)))))).))))))).))))).)))...)))))))))...))))))))))).......)))))))))))))))))).))))).....)))).))).)))))).))))))).)))).))....)))))

Structure
     aaaau  u    C       C      U   A    ---ug     a          cc        -------           --c         uca   g     u       c      ----g     ca 
ugacc     uc ucuU CCCAGUC AGGCAU CCA Cagu     auaac ucuagaucug  aauacuuu       guauuuuuguu   uucuauuuu   cau acauc ucaaaau uacuau     agcuu  u
|||||     || |||| ||||||| |||||| ||| ||||     ||||| ||||||||||  ||||||||       |||||||||||   |||||||||   ||| ||||| ||||||| ||||||     |||||   
acugg     ag agaa ggguuag uucgua ggu gucg     uauug aggucuagac  uuguggaa       caugaaaguaa   aggauaaaa   gua uguag aguuuug guggua     ucgaa  c
     -auuc  u    a       u      u   g    aauug     g          --        aaaugau           auu         ucc   g     u       a      aagaa     ua 


Annotation confidence Not enough data
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Genome context
chr4: 423125-423389 [+]
Clustered miRNAs
1 other miRNA is < 10 kb from sly-MIR5300
Name Accession Chromosome Start End Strand Confidence




Database links

Mature sly-miR5300

Accession MIMAT0020764
Description Solanum lycopersicum sly-miR5300 mature miRNA
Sequence 17 - UCCCCAGUCCAGGCAUUCCAAC - 38
Evidence experimental
Illumina [1]

References

  1. PubMed ID: 21443685
    Profiling of short RNAs during fleshy fruit development reveals stage-specific sRNAome expression patterns
    "Mohorianu I, Schwach F, Jing R, Lopez-Gomollon S, Moxon S, Szittya G, Sorefan K, Moulton V, Dalmay T"
    "Plant J (2011) 67:232-246