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OLFML3 olfactomedin like 3 [ Homo sapiens (human) ]

Gene ID: 56944, updated on 5-Mar-2024

Summary

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Official Symbol
OLFML3provided by HGNC
Official Full Name
olfactomedin like 3provided by HGNC
Primary source
HGNC:HGNC:24956
See related
Ensembl:ENSG00000116774 MIM:610088; AllianceGenome:HGNC:24956
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
OLF44; HNOEL-iso
Summary
This gene encodes a member of the olfactomedin-like gene family which also includes genes encoding noelin, tiarin, myocilin, amassin, optimedin, photomedin, and latrophilin. The encoded protein is a secreted extracellular matrix glycoprotein with a C-terminal olfactomedin domain that facilitates protein-protein interactions, cell adhesion, and intercellular interactions. It serves as both a scaffold protein that recruits bone morphogenetic protein 1 to its substrate chordin, and as a vascular tissue remodeler with pro-angiogenic properties. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Feb 2017]
Expression
Broad expression in ovary (RPKM 65.9), endometrium (RPKM 56.6) and 23 other tissues See more
Orthologs
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Genomic context

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See OLFML3 in Genome Data Viewer
Location:
1p13.2
Exon count:
4
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 1 NC_000001.11 (113979474..113982253)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 1 NC_060925.1 (113991135..113993914)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (114522096..114524875)

Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene ATAC-STARR-seq lymphoblastoid active region 1540 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 1541 Neighboring gene GATA motif-containing MPRA enhancer 196 Neighboring gene adaptor related protein complex 4 subunit beta 1 Neighboring gene DNA cross-link repair 1B Neighboring gene ATAC-STARR-seq lymphoblastoid active region 1542 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 1217 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 1218 Neighboring gene HIPK1 antisense RNA 1 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:114480377-114480904 Neighboring gene MPRA-validated peak375 silencer Neighboring gene homeodomain interacting protein kinase 1 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr1:114519457-114520034 Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr1:114521340-114522173 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:114523841-114524673 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:114525929-114526892 Neighboring gene ribosomal protein L13a pseudogene 10 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr1:114557741-114558940 Neighboring gene H3K27ac hESC enhancer GRCh37_chr1:114573243-114573826 Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr1:114574411-114574994 Neighboring gene Sharpr-MPRA regulatory region 7982 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:114579664-114580246 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr1:114580831-114581413 Neighboring gene NANOG hESC enhancer GRCh37_chr1:114592578-114593255 Neighboring gene NANOG hESC enhancer GRCh37_chr1:114600776-114601630 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:114621064-114621564 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:114634493-114634994 Neighboring gene NANOG-H3K4me1 hESC enhancer GRCh37_chr1:114647517-114648164 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 1543 Neighboring gene synaptotagmin 6 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:114667021-114667808 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:114688166-114688878

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
  • 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. Surfaceome CRISPR screen identifies OLFML3 as a rhinovirus-inducible IFN antagonist. Mei H, et al. Genome Biol, 2021 Oct 22. PMID 34686207, Free PMC Article
  2. Biodegradable and plasma-treated electrospun scaffolds coated with recombinant Olfactomedin-like 3 for accelerating wound healing and tissue regeneration. Dunn LL, et al. Wound Repair Regen, 2016 Nov. PMID 27684720
  3. Olfactomedin proteins: central players in development and disease. Anholt RR. Front Cell Dev Biol, 2014. PMID 25364714, Free PMC Article
  4. Proteome profiling of cancer-associated fibroblasts identifies novel proinflammatory signatures and prognostic markers for colorectal cancer. Torres S, et al. Clin Cancer Res, 2013 Nov 1. PMID 24025712
  5. Targeting olfactomedin-like 3 inhibits tumor growth by impairing angiogenesis and pericyte coverage. Miljkovic-Licina M, et al. Mol Cancer Ther, 2012 Dec. PMID 23002094

See all (29) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Surfaceome CRISPR screen identifies OLFML3 as a rhinovirus-inducible IFN antagonist.
    Title: Surfaceome CRISPR screen identifies OLFML3 as a rhinovirus-inducible IFN antagonist.
  2. Microglia-Derived Olfactomedin-like 3 Promotes Pro-Tumorigenic Microglial Function and Malignant Features of Glioma Cells.
    Title: Microglia-Derived Olfactomedin-like 3 Promotes Pro-Tumorigenic Microglial Function and Malignant Features of Glioma Cells.
  3. Circadian Regulator CLOCK Recruits Immune-Suppressive Microglia into the GBM Tumor Microenvironment.
    Title: Circadian Regulator CLOCK Recruits Immune-Suppressive Microglia into the GBM Tumor Microenvironment.
  4. This paper reports OLFML3 expression in human and baboon eye. The full coding DNA sequence has 1221 bp, from which an open reading frame of 406 amino acid was obtained.
    Title: Olfactomedin-like 3 (OLFML3) gene expression in baboon and human ocular tissues: cornea, lens, uvea, and retina.
  5. may have matrix-related function involved in human placental and embryonic development, or play a similar role in other physiological processes
    Title: hOLF44, a secreted glycoprotein with distinct expression pattern, belongs to an uncharacterized olfactomedin-like subfamily newly identified by phylogenetic analysis.
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

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

Process Evidence Code Pubs
involved_in signal transduction IBA
Inferred from Biological aspect of Ancestor
more info
  
Component Evidence Code Pubs
is_active_in extracellular space IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in extracellular vesicle HDA PubMed 

General protein information

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Preferred Names
olfactomedin-like protein 3
Names
olfactomedin, 44-kd

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.

Genomic

  1. NG_053036.1 RefSeqGene

    Range
    5084..7863
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_001286352.3 → NP_001273281.1  olfactomedin-like protein 3 isoform 2

    See identical proteins and their annotated locations for NP_001273281.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) uses an alternate exon in the 5' UTR and coding region and initiates translation from an alternate start codon compared to variant 1. The encoded isoform (2) is shorter and has a distinct N-terminus compared to isoform 1.
    Source sequence(s)
    AA576955, AK092766, AL731797
    Consensus CDS
    CCDS65618.1
    UniProtKB/Swiss-Prot
    Q9NRN5
    Related
    ENSP00000358564.1, ENST00000369551.5
    Conserved Domains (1) summary
    pfam02191
    Location:119 → 377
    OLF; Olfactomedin-like domain

  2. NM_001286353.3 → NP_001273282.1  olfactomedin-like protein 3 isoform 3

    See identical proteins and their annotated locations for NP_001273282.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) uses an an alternate splice site in the 5' UTR which results in the use of a downstream start codon compared to variant 1. The encoded isoform (3) has a shorter N-terminus compared to isoform 1.
    Source sequence(s)
    AA576955, AL731797, BP201458
    Consensus CDS
    CCDS72839.1
    UniProtKB/TrEMBL
    B4DNG0
    Related
    ENSP00000376977.3, ENST00000393300.6
    Conserved Domains (1) summary
    pfam02191
    Location:78 → 336
    OLF; Olfactomedin-like domain

  3. NM_020190.5 → NP_064575.1  olfactomedin-like protein 3 isoform 1 precursor

    See identical proteins and their annotated locations for NP_064575.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) encodes the longest isoform (1).
    Source sequence(s)
    AY464015
    Consensus CDS
    CCDS870.1
    UniProtKB/Swiss-Prot
    Q53FR1, Q53HV9, Q5SQL6, Q69AX9, Q8NBJ2, Q9NRN5
    UniProtKB/TrEMBL
    M1LAK4
    Related
    ENSP00000322273.4, ENST00000320334.5
    Conserved Domains (2) summary
    pfam02191
    Location:139 → 397
    OLF; Olfactomedin-like domain
    cl28015
    Location:25 → 100
    PspA_IM30; PspA/IM30 family

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

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

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000001.11 Reference GRCh38.p14 Primary Assembly

    Range
    113979474..113982253
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_017001848.3 → XP_016857337.1  olfactomedin-like protein 3 isoform X1

    UniProtKB/Swiss-Prot
    Q9NRN5
    Conserved Domains (1) summary
    pfam02191
    Location:119 → 377
    OLF; Olfactomedin-like domain

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060925.1 Alternate T2T-CHM13v2.0

    Range
    113991135..113993914
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054337755.1 → XP_054193730.1  olfactomedin-like protein 3 isoform X1

Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q9NRN5.1 GenPept UniProtKB/Swiss-Prot:Q9NRN5

Gene LinkOut

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