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    OLFM1 olfactomedin 1 [ Homo sapiens (human) ]

    Gene ID: 10439, updated on 28-Oct-2024

    Summary

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    Official Symbol
    OLFM1provided by HGNC
    Official Full Name
    olfactomedin 1provided by HGNC
    Primary source
    HGNC:HGNC:17187
    See related
    Ensembl:ENSG00000130558 MIM:605366; AllianceGenome:HGNC:17187
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    AMY; NOE1; OlfA; NOELIN1
    Summary
    This gene product shares extensive sequence similarity with the rat neuronal olfactomedin-related ER localized protein. While the exact function of the encoded protein is not known, its abundant expression in brain suggests that it may have an essential role in nerve tissue. Several alternatively spliced transcripts encoding different isoforms have been found for this gene. [provided by RefSeq, Jul 2008]
    Expression
    Biased expression in brain (RPKM 118.4), adrenal (RPKM 7.6) and 1 other tissue See more
    Orthologs
    mouse all
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    Genomic context

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    See OLFM1 in Genome Data Viewer
    Location:
    9q34.3
    Exon count:
    9
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 9 NC_000009.12 (135075505..135121184)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 9 NC_060933.1 (147297503..147344934)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 9 NC_000009.11 (137967351..138013030)

    Chromosome 9 - NC_000009.12Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC124902302 Neighboring gene uncharacterized LOC105376313 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr9:137874334-137874924 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr9:137874925-137875513 Neighboring gene uncharacterized LOC124902303 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr9:137914415-137915055 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr9:137921403-137921903 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr9:137961741-137962638 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr9:137977814-137978674 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr9:137978675-137979535 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr9:137980170-137980974 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr9:137980975-137981778 Neighboring gene ReSE screen-validated silencer GRCh37_chr9:137983799-137983956 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr9:137989975-137990476 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr9:137997768-137998293 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr9:137997243-137997767 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr9:137998819-137999344 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr9:138000081-138000642 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr9:138000643-138001202 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr9:138007797-138008496 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr9:138017982-138018648 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr9:138018649-138019315 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr9:138025969-138026770 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr9:138028163-138028906 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr9:138028907-138029652 Neighboring gene uncharacterized LOC102723948 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr9:138057350-138057850 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr9:138062007-138062508 Neighboring gene H3K27ac hESC enhancer GRCh37_chr9:138064860-138065360 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr9:138066123-138066624 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr9:138078411-138079170 Neighboring gene uncharacterized LOC401557

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: HPA RNA-seq normal tissues HPA RNA-seq normal tissues
    • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
    • BioProject: PRJEB4337
    • Publication: PMID 24309898
    • Analysis date: Wed Apr 4 07:08:55 2018

    Bibliography

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    Related articles in PubMed

    1. Human chorionic gonadotropin stimulates spheroid attachment on fallopian tube epithelial cells through the mitogen-activated protein kinase pathway and down-regulation of olfactomedin-1. So KH, et al. Fertil Steril, 2015 Aug. PMID 25999259
    2. Olfactomedin 1 negatively regulates NF-κB signalling and suppresses the growth and metastasis of colorectal cancer cells. Shi W, et al. J Pathol, 2016 Nov. PMID 27555280
    3. Wnt activation downregulates olfactomedin-1 in Fallopian tubal epithelial cells: a microenvironment predisposed to tubal ectopic pregnancy. Kodithuwakku SP, et al. Lab Invest, 2012 Feb. PMID 21968811, Free PMC Article
    4. Molecular Details of Olfactomedin Domains Provide Pathway to Structure-Function Studies. Hill SE, et al. PLoS One, 2015. PMID 26121352, Free PMC Article
    5. Long Non-Coding RNA LPP-AS2 Plays an Anti-Tumor Role in Thyroid Carcinoma by Regulating the miR-132-3p/OLFM1 Axis. Zhang B, et al. Crit Rev Eukaryot Gene Expr, 2023. PMID 37199315

    See all (32) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Long Non-Coding RNA LPP-AS2 Plays an Anti-Tumor Role in Thyroid Carcinoma by Regulating the miR-132-3p/OLFM1 Axis.
      Title: Long Non-Coding RNA LPP-AS2 Plays an Anti-Tumor Role in Thyroid Carcinoma by Regulating the miR-132-3p/OLFM1 Axis.
    2. OLFM1 is a negative regulator of non-canonical NF-kappaB signalling by interacting with and inhibiting NIK. Thus, OLFM1 may serve as a valuable biomarker and therapeutic target for colorectal cancer (CRC) patients.
      Title: Olfactomedin 1 negatively regulates NF-κB signalling and suppresses the growth and metastasis of colorectal cancer cells.
    3. human chorionic gonadotropin stimulated miR-212, which down-regulated OLFM1 and CTBP1 expression in fallopian and endometrial epithelial cells to favor spheroid attachment
      Title: MicroRNA-212 Regulates the Expression of Olfactomedin 1 and C-Terminal Binding Protein 1 in Human Endometrial Epithelial Cells to Enhance Spheroid Attachment In Vitro.
    4. OLF domains from H. sapiens olfactomedin-1 and M. musculus gliomedin were biophysically, biochemically, and structurally characterized.
      Title: Molecular Details of Olfactomedin Domains Provide Pathway to Structure-Function Studies.
    5. Down-regulation of OLFM1 in fallopian tube epithelial cells enhances spheroid attachment to fallopian tube.
      Title: Human chorionic gonadotropin stimulates spheroid attachment on fallopian tube epithelial cells through the mitogen-activated protein kinase pathway and down-regulation of olfactomedin-1.
    6. Wnt activation suppresses Olfm-1 expression, and this may predispose a favorable microenvironment of the retained embryo in the Fallopian tube, leading to ectopic pregnancy in humans
      Title: Wnt activation downregulates olfactomedin-1 in Fallopian tubal epithelial cells: a microenvironment predisposed to tubal ectopic pregnancy.
    7. Clinical trial of gene-disease association and gene-environment interaction. (HuGE Navigator)
      Title: Personalized smoking cessation: interactions between nicotine dose, dependence and quit-success genotype score.
    Submit: New GeneRIF Correction

    Phenotypes

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    Find tests for this gene in the NIH Genetic Testing Registry (GTR)

    Review eQTL and phenotype association data in this region using PheGenI

    EBI GWAS Catalog

    Description
    Novel genetic loci identified for the pathophysiology of childhood obesity in the Hispanic population.
    EBI GWAS Catalog
    Serum ferritin levels are associated with a distinct phenotype of chronic hepatitis C poorly responding to pegylated interferon-alpha and ribavirin therapy.
    EBI GWAS Catalog

    Variation

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    See variants in ClinVar

    See studies and variants in dbVar

    See Variation Viewer (GRCh37.p13)

    See Variation Viewer (GRCh38)

    Genotypes

    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 GOA

    Function Evidence Code Pubs
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    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 nervous system development TAS
    Traceable Author Statement
    more info
    		 PubMed 
    involved_in neuronal signal transduction ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in positive regulation of apoptotic process IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    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 ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in regulation of neurotransmitter receptor localization to postsynaptic specialization membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in signal transduction IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    located_in axon ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    located_in axonal growth cone ISS
    Inferred from Sequence or Structural Similarity
    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 ISS
    Inferred from Sequence or Structural Similarity
    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 synapse IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    noelin
    Names
    neuroblastoma protein
    neuronal olfactomedin-related ER localized protein
    olfactomedin related ER localized protein
    pancortin 1

    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_001282611.2 → NP_001269540.1  noelin isoform 4 precursor

      See identical proteins and their annotated locations for NP_001269540.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (4) differs in the 5' UTR and 5' coding region which results in the use of an alternate start codon, compared to variant 1. The encoded isoform (4) has distinct N-terminus, compared to isoform 1.
      Source sequence(s)
      AK290478, AL390778, BU078731
      Consensus CDS
      CCDS65184.1
      UniProtKB/Swiss-Prot
      Q53XZ8, Q6IMJ4, Q6IMJ5, Q8N8R0, Q969S7, Q99452, Q99784
      UniProtKB/TrEMBL
      A8K104, A8K1K6
      Related
      ENSP00000360858.3, ENST00000371793.8
      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

    2. NM_001282612.1 → NP_001269541.1  noelin isoform 5

      See identical proteins and their annotated locations for NP_001269541.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (5) differs in the 5' UTR and 5' coding region which results in the use of an alternate start codon, compared to variant 1. The encoded isoform (5) has distinct N-terminus, compared to isoform 1.
      Source sequence(s)
      AK096304, AL390778, BU078731
      Consensus CDS
      CCDS65183.1
      UniProtKB/TrEMBL
      A8K104, A8K1K6
      Related
      ENSP00000360861.3, ENST00000371796.7
      Conserved Domains (3) summary
      smart00284
      Location:201 → 451
      OLF; Olfactomedin-like domains
      pfam12308
      Location:27 → 125
      Noelin-1; Neurogenesis glycoprotein
      cl25732
      Location:65 → 191
      SMC_N; RecF/RecN/SMC N terminal domain

    3. NM_006334.4 → NP_006325.1  noelin isoform 2 precursor

      See identical proteins and their annotated locations for NP_006325.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (2) contains a distinct 3' UTR and lacks a portion of the 3' coding region, compared to variant 1. The resulting isoform (2) has a shorter and distinct C-terminus when compared to isoform 1.
      Source sequence(s)
      AI656802, D82343, DB069120
      Consensus CDS
      CCDS6987.1
      UniProtKB/TrEMBL
      A8MPW0, Q6IMJ7
      Related
      ENSP00000277415.11, ENST00000277415.15
      Conserved Domains (1) summary
      pfam12308
      Location:38 → 134
      Noelin-1; Neurogenesis glycoprotein

    4. NM_014279.5 → NP_055094.1  noelin isoform 1 precursor

      See identical proteins and their annotated locations for NP_055094.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (1) encodes the longest isoform (1).
      Source sequence(s)
      BC011741, BU078731, BX461034, DA795630
      Consensus CDS
      CCDS6986.1
      UniProtKB/TrEMBL
      A8K104, A8K1K6, Q6IMJ8
      Related
      ENSP00000252854.4, ENST00000252854.8
      Conserved Domains (3) summary
      smart00284
      Location:210 → 460
      OLF; Olfactomedin-like domains
      PRK03918
      Location:74 → 200
      PRK03918; DNA double-strand break repair ATPase Rad50
      pfam12308
      Location:38 → 134
      Noelin-1; Neurogenesis glycoprotein

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

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

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000009.12 Reference GRCh38.p14 Primary Assembly

      Range
      135075505..135121184
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060933.1 Alternate T2T-CHM13v2.0

      Range
      147297503..147344934
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NM_058199.2: Suppressed sequence

      Description
      NM_058199.2: This RefSeq was temporarily suppressed because currently there is not sufficient data to support this transcript.
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q99784.4 GenPept UniProtKB/Swiss-Prot:Q99784

    Gene LinkOut

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

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