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Olfm3 olfactomedin 3 [ Mus musculus (house mouse) ]

Gene ID: 229759, updated on 2-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 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

Gene LinkOut

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