miRBase entry: ptc-MIR172b

Stem-loop ptc-MIR172b


Accession
MI0002288
Description
Populus trichocarpa ptc-MIR172b precursor miRNA
Gene family
MIPF0000035; MIR172

Literature search
8 open access papers mention ptc-MIR172b
(34 sentences)

Sequence

uuguuugcggguGGAGCAUCAUCAAGAUUCACAugcaaaugcacggccggugauguuaagaguuaaaucuuucuuuguuucuguucaucugccaaaguucuuuggaagugAGAAUCUUGAUGAUGCUGCAUcggcaauaa
....((((.((((.((((((((((((((((((.(.((((.((..(((.(((((.....((((.((((......)))).))))..))))).)))...))..)))).).))))..)))))))))))))).)))).))))...

Structure
uugu    g    G              --    A g    -u  -ac   c     uguua    u    uc 
    uugc gguG AGCAUCAUCAAGAU  UCAC u caaa  gc   ggc gguga     agag uaaa  u
    |||| |||| ||||||||||||||  |||| | ||||  ||   ||| |||||     |||| ||||   
    aacg cUAC UCGUAGUAGUUCUA  Agug a guuu  ug   ccg cuacu     ucuu guuu  u
-aau    g    G              AG    a g    cu  aaa   u     ---ug    u    cu 


Annotation confidence Not enough data
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Genome context
CM000345.2: 1730120-1730259 [-]

Database links

Mature ptc-miR172b-3p

Accession MIMAT0001994
Description Populus trichocarpa ptc-miR172b-3p mature miRNA
Sequence 111 - AGAAUCUUGAUGAUGCUGCAU - 131
Evidence experimental
miRNAseq [3]

Mature ptc-miR172b-5p

Accession MIMAT0022904
Description Populus trichocarpa ptc-miR172b-5p mature miRNA
Sequence 13 - GGAGCAUCAUCAAGAUUCACA - 33
Evidence experimental
miRNAseq [3]

References

  1. Conservation and divergence of microRNA families in plants
    "Dezulian T, Palatnik JF, Huson DH, Weigel D"
    Genome Biol. (2005) 6:P13

  2. PubMed ID: 16973872
    The genome of black cottonwood, Populus trichocarpa (Torr. & Gray)
    "Tuskan GA, Difazio S, Jansson S, Bohlmann J, Grigoriev I, Hellsten U, Putnam N, Ralph S, Rombauts S, Salamov A, Schein J, Sterck L, Aerts A, Bhalerao RR, Bhalerao RP, Blaudez D, Boerjan W, Brun A, Brunner A, Busov V, Campbell M, Carlson J, Chalot M, Chapm"
    "Science (2006) 313:1596-1604

  3. PubMed ID: 22442676
    Deep annotation of Populus trichocarpa microRNAs from diverse tissue sets
    Puzey JR, Karger A, Axtell M, Kramer EM
    PLoS One (2012) 7:e33034