Stem-loop sequence rno-mir-3548

Accession

MI0015404 (change log)

Description

Rattus norvegicus miR-3548 stem-loop

Gene family

MIPF0000019; mir-8

Literature search

1 open access papers mention rno-mir-3548
(2 sentences)

Stem-loop

       -g  --      ---      ac  u  aa    g     a         a  -g  aa 
5' cuuc  gc  gagugu   uggguc  cu ug  cauc uuacc gacaguguu ga  uc  g
   ||||  ||  ||||||   ||||||  || ||  |||| ||||| ||||||||| ||  ||  c
3' gaag  ug  uucgua   acccgg  ga ac  guag aaugg cugucacga cu  ag  c
       ga  gu      ugg      -a  c  cc    -     c         c  aa  aa 

Deep sequencing

7 reads, 0 reads per million, 6 experiments

Confidence

Annotation confidence: not enough data

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Genome context

• Coordinates (Rnor_6.0; GCA_000001895.4): chr5: 173489353-173489472 [+]
• Overlapping transcripts:

  intergenic

Clustered miRNAs

< 10kb from rno-mir-3548

• rno-mir-429: chr5: 173488331-173488415 [-]
• rno-mir-3548: chr5: 173489353-173489472 [+]
• rno-mir-200a: chr5: 173489366-173489454 [-]
• rno-mir-200b: chr5: 173490144-173490238 [-]

Database links

• EntrezGene:Mir3548
• miRBase Tracker:MI0015404

Mature sequence rno-miR-3548

• Accession: MIMAT0017806
• Sequence: 68 - cagcacuguccgguaagaugcc - 89
• Deep sequencing: 2 reads, 2 experiments
• Evidence: experimental; SOLiD [1]
• Predicted targets:
  • TargetScanVert:rno-miR-3548
  • miRDB:rno-miR-3548

References

1. PMID:20403161 "Small RNA expression and strain specificity in the rat" Linsen SE, de Wit E, de Bruijn E, Cuppen E BMC Genomics. 11:249(2010).