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    Olfm3 olfactomedin 3 [ Mus musculus (house mouse) ]

    Gene ID: 229759, updated on 27-Nov-2024

    Summary

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    Official Symbol
    Olfm3provided by MGI
    Official Full Name
    olfactomedin 3provided by MGI
    Primary source
    MGI:MGI:2387329
    See related
    Ensembl:ENSMUSG00000027965 AllianceGenome:MGI:2387329
    Gene type
    protein coding
    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
    B230206G02Rik
    Summary
    Predicted to be involved in eye photoreceptor cell development and signal transduction. Located in Golgi apparatus and extracellular space. Part of AMPA glutamate receptor complex. Is expressed in brain; eye; and head. Orthologous to human OLFM3 (olfactomedin 3). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in cerebellum adult (RPKM 12.6), cortex adult (RPKM 2.5) and 5 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Olfm3 in Genome Data Viewer
    Location:
    3 F3; 3 49.43 cM
    Exon count:
    9
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 3 NC_000069.7 (114697727..114919413)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 3 NC_000069.6 (114904078..115125764)

    Chromosome 3 - NC_000069.7Genomic Context describing neighboring genes Neighboring gene predicted gene, 23750 Neighboring gene TIP41, TOR signalling pathway regulator-like pseudogene Neighboring gene STARR-seq mESC enhancer starr_08743 Neighboring gene STARR-seq mESC enhancer starr_08744 Neighboring gene STARR-seq mESC enhancer starr_08745 Neighboring gene predicted gene, 54178 Neighboring gene STARR-seq mESC enhancer starr_08747 Neighboring gene STARR-seq mESC enhancer starr_08749 Neighboring gene STARR-seq mESC enhancer starr_08750 Neighboring gene crumbs homolog 1 pseudogene Neighboring gene predicted gene, 54179

    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. Olfactomedin 2: expression in the eye and interaction with other olfactomedin domain-containing proteins. Sultana A, et al. Invest Ophthalmol Vis Sci, 2011 Apr. PMID 21228389, Free PMC Article
    2. A Noelin-organized extracellular network of proteins required for constitutive and context-dependent anchoring of AMPA-receptors. Boudkkazi S, et al. Neuron, 2023 Aug 16. PMID 37591201, Free PMC Article
    3. Optimedin: a novel olfactomedin-related protein that interacts with myocilin. Torrado M, et al. Hum Mol Genet, 2002 May 15. PMID 12019210
    4. The Optimedin gene is a downstream target of Pax6. Grinchuk O, et al. J Biol Chem, 2005 Oct 21. PMID 16115881
    5. Deletion in the N-terminal half of olfactomedin 1 modifies its interaction with synaptic proteins and causes brain dystrophy and abnormal behavior in mice. Nakaya N, et al. Exp Neurol, 2013 Dec. PMID 24095980, 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)
    • Endonuclease-mediated (1) 
    • Targeted (1)  1 citation

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in eye photoreceptor cell development IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in eye photoreceptor cell development ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in signal transduction IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    part_of AMPA glutamate receptor complex IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in Golgi apparatus IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    is_active_in extracellular space IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in extracellular space IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in synapse IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    noelin-3
    Names
    optimedin

    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.

    mRNA and Protein(s)

    1. NM_001286750.1 → NP_001273679.1  noelin-3 isoform C

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) uses an alternate 5' terminal exon, lacks a portion of the 5' coding region and initiates translation at an alternate start codon compared to variant 1. The encoded protein (isoform C) has a distinct N-terminus and is shorter than isoform A.
      Source sequence(s)
      AC161527, AK137414, BB075757, BB628879
      UniProtKB/TrEMBL
      Q3UVC5
      Conserved Domains (3) summary
      pfam02191
      Location:189 → 433
      OLF; Olfactomedin-like domain
      pfam12308
      Location:13 → 111
      Noelin-1; Neurogenesis glycoprotein
      cl25732
      Location:48 → 184
      SMC_N; RecF/RecN/SMC N terminal domain

    2. NM_153157.3 → NP_694797.1  noelin-3 isoform B precursor

      See identical proteins and their annotated locations for NP_694797.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) uses an alternate 5' terminal exon, lacks a portion of the 5' coding region and initiates translation at an alternate start codon compared to variant 1. The encoded protein (isoform B) has a distinct N-terminus and is longer than isoform A.
      Source sequence(s)
      AC161527
      Consensus CDS
      CCDS17780.1
      UniProtKB/Swiss-Prot
      P63056
      Related
      ENSMUSP00000060985.9, ENSMUST00000051309.9
      Conserved Domains (3) summary
      PRK03918
      Location:81 → 217
      PRK03918; DNA double-strand break repair ATPase Rad50
      pfam02191
      Location:222 → 466
      OLF; Olfactomedin-like domain
      pfam12308
      Location:46 → 145
      Noelin-1; Neurogenesis glycoprotein

    3. NM_153458.3 → NP_703188.1  noelin-3 isoform A precursor

      See identical proteins and their annotated locations for NP_703188.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longest transcript and encodes isoform A.
      Source sequence(s)
      AC161527, AK049612, AK137414, BB075757
      Consensus CDS
      CCDS17779.1
      UniProtKB/TrEMBL
      Q3UVC5
      Related
      ENSMUSP00000080448.7, ENSMUST00000081752.13
      Conserved Domains (3) summary
      PRK03918
      Location:61 → 197
      PRK03918; DNA double-strand break repair ATPase Rad50
      pfam02191
      Location:202 → 446
      OLF; Olfactomedin-like domain
      pfam12308
      Location:26 → 124
      Noelin-1; Neurogenesis glycoprotein

    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_000069.7 Reference GRCm39 C57BL/6J

      Range
      114697727..114919413
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006501418.3 → XP_006501481.1  noelin-3 isoform X1

      See identical proteins and their annotated locations for XP_006501481.1

      Conserved Domains (3) summary
      PRK03918
      Location:19 → 122
      PRK03918; DNA double-strand break repair ATPase Rad50
      pfam02191
      Location:127 → 371
      OLF; Olfactomedin-like domain
      pfam12308
      Location:1 → 49
      Noelin-1; Neurogenesis glycoprotein
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    P63056.1 GenPept UniProtKB/Swiss-Prot:P63056

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