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    Pantr1 POU domain, class 3, transcription factor 3 adjacent noncoding transcript 1 [ Mus musculus (house mouse) ]

    Gene ID: 66297, updated on 5-Mar-2024

    Summary

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    Official Symbol
    Pantr1provided by MGI
    Official Full Name
    POU domain, class 3, transcription factor 3 adjacent noncoding transcript 1provided by MGI
    Primary source
    MGI:MGI:1913547
    See related
    AllianceGenome:MGI:1913547
    Gene type
    ncRNA
    RefSeq status
    VALIDATED
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
    Also known as
    Pou3f3os; linc-Brn1a; 2610017I09Rik
    Summary
    Acts upstream of or within regulation of gene expression. Is expressed in brain. Orthologous to human PANTR1 (POU3F3 adjacent non-coding transcript 1). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in CNS E14 (RPKM 34.6), CNS E11.5 (RPKM 34.2) and 7 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Pantr1 in Genome Data Viewer
    Location:
    1 B; 1 21.08 cM
    Exon count:
    4
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 1 NC_000067.7 (42687360..42733985, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 1 NC_000067.6 (42648200..42694825, complement)

    Chromosome 1 - NC_000067.7Genomic Context describing neighboring genes Neighboring gene predicted gene, 46089 Neighboring gene predicted gene, 36822 Neighboring gene predicted gene 20646 Neighboring gene RIKEN cDNA 2900092D14 gene Neighboring gene POU domain, class 3, transcription factor 3

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Mouse ENCODE transcriptome data
    • Description: RNA profiling data sets generated by the Mouse ENCODE project.
    • BioProject: PRJNA66167
    • Publication: PMID 25409824
    • Analysis date: n/a

    Bibliography

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    Related articles in PubMed

    1. Variation in Activity State, Axonal Projection, and Position Define the Transcriptional Identity of Individual Neocortical Projection Neurons. Chevée M, et al. Cell Rep, 2018 Jan 9. PMID 29320739, Free PMC Article
    2. Spatiotemporal expression and transcriptional perturbations by long noncoding RNAs in the mouse brain. Goff LA, et al. Proc Natl Acad Sci U S A, 2015 Jun 2. PMID 26034286, Free PMC Article
    3. Spatial and temporal analysis of gene expression during growth and fusion of the mouse facial prominences. Feng W, et al. PLoS One, 2009 Dec 16. PMID 20016822, Free PMC Article
    4. Diverse Phenotypes and Specific Transcription Patterns in Twenty Mouse Lines with Ablated LincRNAs. Lai KM, et al. PLoS One, 2015. PMID 25909911, Free PMC Article
    5. Single-cell transcriptomic signatures and gene regulatory networks modulated by Wls in mammalian midline facial formation and clefts. Gu R, et al. Development, 2022 Jul 15. PMID 35781558, Free PMC Article

    See all (18) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Variation

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    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)

    General gene information

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    Markers

    Homology

    Other Names

    • POU domain, class 3, transcription factor 3, opposite strand

    Gene Ontology Provided by MGI

    Process Evidence Code Pubs
    acts_upstream_of_or_within regulation of gene expression IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 

    NCBI Reference Sequences (RefSeq)

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    RefSeqs maintained independently of Annotated Genomes

    These reference sequences exist independently of genome builds. Explain

    These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

    RNA

    1. NR_027826.2 RNA Sequence

      Status: VALIDATED

      Source sequence(s)
      AC122898

    RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCm39 C57BL/6J

    Genomic

    1. NC_000067.7 Reference GRCm39 C57BL/6J

      Range
      42687360..42733985 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NM_183252.1: Suppressed sequence

      Description
      NM_183252.1: This RefSeq was permanently suppressed because currently there is support for the transcript but not the protein.
    Nucleotide Protein Strain
    Heading Accession and Version

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.