U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination
    • Showing Current items.

    Olfm1 olfactomedin 1 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 93667, updated on 2-May-2024

    Summary

    Go to the top of the page Help
    Official Symbol
    Olfm1provided by RGD
    Official Full Name
    olfactomedin 1provided by RGD
    Primary source
    RGD:620320
    See related
    Ensembl:ENSRNOG00000009862 AllianceGenome:RGD:620320
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Also known as
    Noe1; D2Sut1e
    Summary
    Predicted to enable amyloid-beta binding activity and identical protein binding activity. Predicted to be involved in several processes, including heart development; neuronal signal transduction; and regulation of gene expression. Predicted to act upstream of or within negative regulation of amyloid-beta formation and negative regulation of neuron migration. Predicted to be located in several cellular components, including axonal growth cone; neuronal cell body; and synaptic membrane. Predicted to be part of AMPA glutamate receptor complex. Predicted to be active in glutamatergic synapse. Predicted to be extrinsic component of synaptic membrane. Orthologous to human OLFM1 (olfactomedin 1). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in Brain (RPKM 633.7), Lung (RPKM 37.6) and 1 other tissue See more
    Orthologs
    human mouse all
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    Go to the top of the page Help
    See Olfm1 in Genome Data Viewer
    Location:
    3p12
    Exon count:
    8
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 3 NC_086021.1 (31918512..31956261)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 3 NC_051338.1 (11520522..11558240)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 3 NC_005102.4 (6761031..6798739)

    Chromosome 3 - NC_086021.1Genomic Context describing neighboring genes Neighboring gene collagen type V alpha 1 chain Neighboring gene ficolin B Neighboring gene uncharacterized LOC134486351 Neighboring gene Microtubule-associated proteins 1A/1B light chain 3B-like

    Genomic regions, transcripts, and products

    Go to the top of the page Help

    Go to nucleotide: Graphics FASTA GenBank

    Expression

    Go to the top of the page Help
    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
    • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
    • BioProject: PRJNA238328
    • Publication: PMID 24510058
    • Analysis date: Mon Jun 6 17:44:12 2016

    Bibliography

    Go to the top of the pageHelp

    Related articles in PubMed

    1. Four structurally distinct neuron-specific olfactomedin-related glycoproteins produced by differential promoter utilization and alternative mRNA splicing from a single gene. Danielson PE, et al. J Neurosci Res, 1994 Jul 1. PMID 7932877
    2. Expression and characterization of disulfide bond use of oligomerized A2-Pancortins: extracellular matrix constituents in the developing brain. Ando K, et al. Neuroscience, 2005. PMID 15927402
    3. Pancortins interact with amyloid precursor protein and modulate cortical cell migration. Rice HC, et al. Development, 2012 Nov. PMID 22992957, Free PMC Article
    4. Olfactomedin 1 interacts with the Nogo A receptor complex to regulate axon growth. Nakaya N, et al. J Biol Chem, 2012 Oct 26. PMID 22923615, Free PMC Article
    5. Cell-based screening and validation of human novel genes associated with cell viability. Wang L, et al. J Biomol Screen, 2006 Jun. PMID 16751333

    See all (8) citations in PubMed

    GeneRIFs: Gene References Into Functions

    General gene information

    Go to the top of the page Help

    Markers

    Homology

    Gene Ontology Provided by RGD

    Process Evidence Code Pubs
    involved_in atrioventricular valve formation ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in cardiac epithelial to mesenchymal transition ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in negative regulation of gene expression ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in neuronal signal transduction ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in neuronal signal transduction ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in positive regulation of apoptotic process ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of apoptotic process ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in positive regulation of epithelial to mesenchymal transition ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in positive regulation of gene expression ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in regulation of axon extension ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulation of axon extension ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in regulation of neurotransmitter receptor localization to postsynaptic specialization membrane EXP
    Inferred from Experiment
    more info
    		 PubMed 
    involved_in regulation of neurotransmitter receptor localization to postsynaptic specialization membrane IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in signal transduction IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    part_of AMPA glutamate receptor complex ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in axon ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in axon ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    located_in axonal growth cone ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in axonal growth cone ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    located_in endoplasmic reticulum ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in endoplasmic reticulum ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    is_active_in extracellular space IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in extracellular space ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in extracellular space ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    is_active_in extrinsic component of postsynaptic density membrane ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in extrinsic component of synaptic membrane ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in glutamatergic synapse ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in neuronal cell body ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in neuronal cell body ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    located_in perikaryon IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in synaptic membrane ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

    Go to the top of the page Help
    Preferred Names
    noelin
    Names
    1B426B
    neuronal olfactomedin-related ER localized protein
    olfactomedin related ER localized protein
    pancortin

    NCBI Reference Sequences (RefSeq)

    Go to the top of the page Help

    NEW Try the new Transcript table

    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_001429602.1 → NP_001416531.1  noelin isoform b precursor

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000003

    2. NM_001429603.1 → NP_001416532.1  noelin isoform c precursor

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000003

    3. NM_001429604.1 → NP_001416533.1  noelin isoform d precursor

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000003

    4. NM_053573.2 → NP_446025.1  noelin isoform a precursor

      See identical proteins and their annotated locations for NP_446025.1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000003
      UniProtKB/Swiss-Prot
      Q62606, Q62607, Q62608, Q62609
      UniProtKB/TrEMBL
      A6JTM6
      Related
      ENSRNOP00000013443.3, ENSRNOT00000013443.7
      Conserved Domains (3) summary
      smart00284
      Location:228 → 478
      OLF; Olfactomedin-like domains
      PRK03918
      Location:92 → 218
      PRK03918; DNA double-strand break repair ATPase Rad50
      pfam12308
      Location:56 → 152
      Noelin-1; Neurogenesis glycoprotein

    RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

    Reference GRCr8

    Genomic

    1. NC_086021.1 Reference GRCr8

      Range
      31918512..31956261
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006233877.4 → XP_006233939.1  noelin isoform X3

      UniProtKB/TrEMBL
      A6JTM5
      Conserved Domains (1) summary
      pfam12308
      Location:28 → 124
      Noelin-1; Neurogenesis glycoprotein

    2. XM_006233875.4 → XP_006233937.1  noelin isoform X1

      UniProtKB/TrEMBL
      A6JTM4
      Related
      ENSRNOP00000077356.1, ENSRNOT00000104931.1
      Conserved Domains (3) summary
      smart00284
      Location:200 → 450
      OLF; Olfactomedin-like domains
      PRK03918
      Location:64 → 190
      PRK03918; DNA double-strand break repair ATPase Rad50
      pfam12308
      Location:28 → 124
      Noelin-1; Neurogenesis glycoprotein

    3. XM_006233876.5 → XP_006233938.1  noelin isoform X2

      UniProtKB/TrEMBL
      A6JTM7
      Conserved Domains (1) summary
      pfam12308
      Location:56 → 152
      Noelin-1; Neurogenesis glycoprotein
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q62609.1 GenPept UniProtKB/Swiss-Prot:Q62609

    Gene LinkOut

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

    Chemical Information
    Molecular Biology Databases
    Research Materials
    Tools
    Miscellaneous