Stem-loop sly-MIR5300

Accession

MI0018477

Description

Solanum lycopersicum sly-MIR5300 precursor miRNA

Literature search

5 open access papers mention sly-MIR5300
(14 sentences)

Sequence

409322 reads, 4812.0 reads per million, 76 experiments

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 High

Genome context

chr4: 423125-423389 [+]

Clustered miRNAs

1 other miRNA is < 10 kb from sly-MIR5300

Mature sly-miR5300-5p

• Accession: MIMAT0020764
• Description: Solanum lycopersicum sly-miR5300-5p mature miRNA
• Sequence: 17 - UCCCCAGUCCAGGCAUUCCAAC - 38
• Evidence: experimental ; Illumina [1]

Mature sly-miR5300-3p

• Accession: MIMAT0055727
• Description: Solanum lycopersicum sly-miR5300-3p mature miRNA
• Sequence: 231 - UGGUAUGCUUUGAUUGGGAAAGA - 253
• Evidence: experimental ; unknown

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