Stem-loop sequence sme-mir-2d

Accession

MI0005135 (change log)

Description

Schmidtea mediterranea miR-2d stem-loop

Gene family

MIPF0000049; mir-2

Stem-loop

        auuu     --c   c        uu     a    c    ga   ug uaac 
5' gugac    ugccu   uua ggacauca  auuug cugu gaua  uau  g    a
   |||||    |||||   ||| ||||||||  ||||| |||| ||||  |||  |     
3' cacug    augga   aau ccuguagu  uaaac gaca cuau  aug  u    u
        ----     aua   -        -u     c    -    -g   gu uuau 

Confidence

Annotation confidence: not enough data

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Genome context

• Coordinates (WUSTL3.1): Contig1374: 32443-32550 [-]
• Overlapping transcripts:

  intergenic

Clustered miRNAs

< 10kb from sme-mir-2d

• sme-mir-71b: Contig1374: 32561-32660 [-]
• sme-mir-2d: Contig1374: 32443-32550 [-]
• sme-mir-752: Contig1374: 32325-32438 [-]
• sme-mir-13: Contig1374: 32236-32295 [-]

Database links

• miRBase Tracker:MI0005135

Mature sequence sme-miR-2d-5p

• Accession: MIMAT0012095
• Sequence: 21 - gacaucauuauuugacugucgau - 43
• Evidence: experimental; Illumina [2-3]

Mature sequence sme-miR-2d-3p

• Accession: MIMAT0003968
• Previous IDs: sme-miR-2d
• Sequence: 72 - ucacagccaaauuugaugucc - 92
• Evidence: experimental; cloned [1], Northern [1], 454 [2], Illumina [2]

References

1. PMID:16849698 "MicroRNAs from the Planarian Schmidtea mediterranea: a model system for stem cell biology" Palakodeti D, Smielewska M, Graveley BR RNA. 12:1640-1649(2006).
2. PMID:19564616 "High-resolution profiling and discovery of planarian small RNAs" Friedlander MR, Adamidi C, Han T, Lebedeva S, Isenbarger TA, Hirst M, Marra M, Nusbaum C, Lee WL, Jenkin JC, Sanchez Alvarado A, Kim JK, Rajewsky N Proc Natl Acad Sci U S A. 106:11546-11551(2009).
3. PMID:19553344 "Deep sequencing identifies new and regulated microRNAs in Schmidtea mediterranea" Lu YC, Smielewska M, Palakodeti D, Lovci MT, Aigner S, Yeo GW, Graveley BR RNA. 15:1483-1491(2009).