This gene encodes a member of the CD300 protein family. Members of this family are cell surface glycoproteins with a single IgV-like extracellular domain, and are involved in the regulation of immune response. The encoded protein is an inhibitory receptor. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Jan 2014] See more...

Aliases for CD300LF Gene

Aliases for CD300LF Gene

  • CD300 Molecule Like Family Member F 2 3 5
  • IREM1 2 3 4
  • CLM1 2 3 4
  • NKIR 2 3 4
  • Immune Receptor Expressed On Myeloid Cells 1 3 4
  • Immunoglobulin Superfamily Member 13 3 4
  • CD300 Antigen-Like Family Member F 3 4
  • CMRF35-Like Molecule 1 3 4
  • NK Inhibitory Receptor 3 4
  • CD300f 2 3
  • IREM-1 3 4
  • IgSF13 3 4
  • IGSF13 2 4
  • CLM-1 3 4
  • CD300 Molecule-Like Family Member F 2
  • CD300 Antigen Like Family Member F 2
  • Immunoglobin Superfamily Member 13 3
  • Inhibitory Receptor IREM1 3
  • CD300f Antigen 4
  • CD300LF 5
  • CD300F 4
  • LMIR3 3

External Ids for CD300LF Gene

Previous GeneCards Identifiers for CD300LF Gene

  • GC17M070204
  • GC17M072690
  • GC17M068099

Summaries for CD300LF Gene

Entrez Gene Summary for CD300LF Gene

  • This gene encodes a member of the CD300 protein family. Members of this family are cell surface glycoproteins with a single IgV-like extracellular domain, and are involved in the regulation of immune response. The encoded protein is an inhibitory receptor. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Jan 2014]

GeneCards Summary for CD300LF Gene

CD300LF (CD300 Molecule Like Family Member F) is a Protein Coding gene. Diseases associated with CD300LF include Noonan Syndrome 7 and Noonan Syndrome 6. Among its related pathways are Innate Immune System and Class I MHC mediated antigen processing and presentation. An important paralog of this gene is CD300LD.

UniProtKB/Swiss-Prot Summary for CD300LF Gene

  • Acts as an inhibitory receptor for myeloid cells and mast cells (PubMed:15549731). Positively regulates the phagocytosis of apoptotic cells (efferocytosis) via phosphatidylserine (PS) recognition; recognizes and binds PS as a ligand which is expressed on the surface of apoptotic cells. Plays an important role in the maintenance of immune homeostasis, by promoting macrophage-mediated efferocytosis and by inhibiting dendritic cell-mediated efferocytosis (By similarity). Negatively regulates Fc epsilon receptor-dependent mast cell activation and allergic responses via binding to ceramide and sphingomyelin which act as ligands (PubMed:24035150). May act as a coreceptor for interleukin 4 (IL-4). Associates with and regulates IL-4 receptor alpha-mediated responses by augmenting IL-4- and IL-13-induced signaling (By similarity). Negatively regulates the Toll-like receptor (TLR) signaling mediated by MYD88 and TRIF through activation of PTPN6/SHP-1 and PTPN11/SHP-2 (PubMed:22043923). Inhibits osteoclast formation. Induces macrophage cell death upon engagement (By similarity).

Gene Wiki entry for CD300LF Gene

Additional gene information for CD300LF Gene

No data available for CIViC Summary , Tocris Summary , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for CD300LF Gene

Genomics for CD300LF Gene

GeneHancer (GH) Regulatory Elements Pubs

Promoters and enhancers for CD300LF Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH17J074710 Promoter/Enhancer 1.1 EPDnew Ensembl ENCODE 607.1 +0.8 814 3.2 PKNOX1 ZNF335 SPI1 REST POLR2A CD300LF LOC105371894 RAB37
GH17J074775 Promoter/Enhancer 2.5 EPDnew FANTOM5 Ensembl ENCODE CraniofacialAtlas dbSUPER 19.9 -65.3 -65280 6.6 SP1 HNRNPL CREB1 GATAD2A CTCF PRDM10 ZNF629 REST TFE3 IKZF1 NAT9 TMEM104 lnc-NAT9-3 CD300LF SLC9A3R1 RAB37 GGA3 NUP85 NT5C GRIN2C
GH17J074688 Enhancer 0.9 FANTOM5 ENCODE 27.2 +23.7 23682 2.1 SP1 IKZF2 TRIM22 EED ARID3A DPF2 RELB RUNX3 GATAD2B ASH2L CD300LF CD300E TMEM104 FADS6 NAT9 GRIN2C GGA3 CD300C CD300LB CD300LD
GH17J074526 Promoter/Enhancer 1.5 FANTOM5 Ensembl ENCODE dbSUPER 14.7 +184.3 184295 0.3 IKZF2 TRIM22 PKNOX1 EED DPF2 RELB RUNX3 GATAD2B BCLAF1 BCL11A CD300LB CD300LF CD300C CD300E CD300A TMEM104 CD300LD TTYH2 RAB37 SLC9A3R1
GH17J074600 Promoter/Enhancer 0.8 FANTOM5 Ensembl dbSUPER 20.6 +112.3 112252 0.5 EZH2 ENSG00000261222 LOC101928343 CD300LF CD300E CD300A GPR142 RAB37 CD300C CD300LB TMEM104
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around CD300LF on the GeneHancer Hub at the UCSC Golden Path

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for CD300LF

Top Transcription factor binding sites by QIAGEN in the CD300LF gene promoter:
  • AREB6
  • ER-alpha
  • GR
  • GR-alpha
  • GR-beta
  • Olf-1
  • Pax-5
  • STAT5A
  • STAT5B
  • ZID

Genomic Locations for CD300LF Gene

Genomic Locations for CD300LF Gene
chr17:74,694,308-74,713,000
(GRCh38/hg38)
Size:
18,693 bases
Orientation:
Minus strand
chr17:72,690,452-72,709,117
(GRCh37/hg19)
Size:
18,666 bases
Orientation:
Minus strand

Genomic View for CD300LF Gene

Genes around CD300LF on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
CD300LF Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for CD300LF Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for CD300LF Gene

Proteins for CD300LF Gene

  • Protein details for CD300LF Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q8TDQ1-CLM1_HUMAN
    Recommended name:
    CMRF35-like molecule 1
    Protein Accession:
    Q8TDQ1
    Secondary Accessions:
    • B2RCL2
    • C9JDN3
    • Q3Y6P0
    • Q6UX24
    • Q7Z6A6
    • Q7Z7I4
    • Q7Z7I5
    • Q8N6D0
    • Q8NAF5

    Protein attributes for CD300LF Gene

    Size:
    290 amino acids
    Molecular mass:
    32335 Da
    Quaternary structure:
    • Interacts with PTPN6/SHP-1 in a tyrosine phosphorylation dependent manner (PubMed:15184070, PubMed:15549731). Interacts with IL4R (By similarity).

    Three dimensional structures from OCA and Proteopedia for CD300LF Gene

    Alternative splice isoforms for CD300LF Gene

neXtProt entry for CD300LF Gene

Post-translational modifications for CD300LF Gene

Assay Products

  • Boster Bio ELISA Kits for CD300LF
  • Signalway ELISA kits for CD300LF

No data available for DME Specific Peptides for CD300LF Gene

Domains & Families for CD300LF Gene

Gene Families for CD300LF Gene

HGNC:
Human Protein Atlas (HPA):
  • CD markers
  • Predicted intracellular proteins
  • Predicted membrane proteins

Protein Domains for CD300LF Gene

InterPro:
Blocks:
  • Immunoglobulin subtype
ProtoNet:

Suggested Antigen Peptide Sequences for CD300LF Gene

GenScript: Design optimal peptide antigens:
  • NK inhibitory receptor (CLM1_HUMAN)

Graphical View of Domain Structure for InterPro Entry

Q8TDQ1

UniProtKB/Swiss-Prot:

CLM1_HUMAN :
  • Belongs to the CD300 family.
Family:
  • Belongs to the CD300 family.
genes like me logo Genes that share domains with CD300LF: view

Function for CD300LF Gene

Molecular function for CD300LF Gene

UniProtKB/Swiss-Prot Function:
Acts as an inhibitory receptor for myeloid cells and mast cells (PubMed:15549731). Positively regulates the phagocytosis of apoptotic cells (efferocytosis) via phosphatidylserine (PS) recognition; recognizes and binds PS as a ligand which is expressed on the surface of apoptotic cells. Plays an important role in the maintenance of immune homeostasis, by promoting macrophage-mediated efferocytosis and by inhibiting dendritic cell-mediated efferocytosis (By similarity). Negatively regulates Fc epsilon receptor-dependent mast cell activation and allergic responses via binding to ceramide and sphingomyelin which act as ligands (PubMed:24035150). May act as a coreceptor for interleukin 4 (IL-4). Associates with and regulates IL-4 receptor alpha-mediated responses by augmenting IL-4- and IL-13-induced signaling (By similarity). Negatively regulates the Toll-like receptor (TLR) signaling mediated by MYD88 and TRIF through activation of PTPN6/SHP-1 and PTPN11/SHP-2 (PubMed:22043923). Inhibits osteoclast formation. Induces macrophage cell death upon engagement (By similarity).

Phenotypes From GWAS Catalog for CD300LF Gene

Gene Ontology (GO) - Molecular Function for CD300LF Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0001786 phosphatidylserine binding ISS --
GO:0005136 interleukin-4 receptor binding ISS --
GO:0008289 lipid binding IEA --
GO:0097001 ceramide binding IDA 24035150
genes like me logo Genes that share ontologies with CD300LF: view
genes like me logo Genes that share phenotypes with CD300LF: view

Animal Models for CD300LF Gene

MGI Knock Outs for CD300LF:

Animal Model Products

  • Taconic Biosciences Mouse Models for CD300LF

CRISPR Products

miRNA for CD300LF Gene

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for CD300LF

Clone Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for CD300LF Gene

Localization for CD300LF Gene

Subcellular locations from UniProtKB/Swiss-Prot for CD300LF Gene

Cell membrane. Single-pass type I membrane protein.

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for CD300LF gene
Compartment Confidence
plasma membrane 5
extracellular 2
cytoskeleton 1
mitochondrion 1
nucleus 1
endoplasmic reticulum 1
endosome 1
cytosol 1
lysosome 1

Gene Ontology (GO) - Cellular Components for CD300LF Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005886 plasma membrane TAS --
GO:0016020 membrane IEA --
GO:0016021 integral component of membrane IEA --
genes like me logo Genes that share ontologies with CD300LF: view

No data available for Subcellular locations from the Human Protein Atlas (HPA) for CD300LF Gene

Pathways & Interactions for CD300LF Gene

genes like me logo Genes that share pathways with CD300LF: view

Pathways by source for CD300LF Gene

Gene Ontology (GO) - Biological Process for CD300LF Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0002376 immune system process IEA --
GO:0033004 negative regulation of mast cell activation IDA 24035150
GO:0034125 negative regulation of MyD88-dependent toll-like receptor signaling pathway IMP 22043923
GO:0035666 TRIF-dependent toll-like receptor signaling pathway IMP 22043923
GO:0035772 interleukin-13-mediated signaling pathway ISS --
genes like me logo Genes that share ontologies with CD300LF: view

No data available for SIGNOR curated interactions for CD300LF Gene

Drugs & Compounds for CD300LF Gene

No Compound Related Data Available

Transcripts for CD300LF Gene

mRNA/cDNA for CD300LF Gene

7 REFSEQ mRNAs :
17 NCBI additional mRNA sequence :
10 Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for CD300LF

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for CD300LF Gene

No ASD Table

Relevant External Links for CD300LF Gene

GeneLoc Exon Structure for
CD300LF

Expression for CD300LF Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for CD300LF Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for CD300LF Gene

This gene is overexpressed in Whole Blood (x35.0) and Spleen (x7.0).

Protein differential expression in normal tissues from HIPED for CD300LF Gene

This gene is overexpressed in Monocytes (35.2) and Peripheral blood mononuclear cells (27.2).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB and MOPED for CD300LF Gene



Protein tissue co-expression partners for CD300LF Gene

- Elite partner

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for CD300LF

SOURCE GeneReport for Unigene cluster for CD300LF Gene:

Hs.567706

mRNA Expression by UniProt/SwissProt for CD300LF Gene:

Q8TDQ1-CLM1_HUMAN
Tissue specificity: Highly expressed in spleen, peripheral blood leukocyte and monocyte, and lung. Weakly expressed in thymus, heart, brain, placenta, liver, skeletal muscle, kidney, pancreas, prostate, testis, ovary, small intestine or colon. Expressed selectively in monocytes and monocyte-related cells.

Evidence on tissue expression from TISSUES for CD300LF Gene

  • Lung(4.9)
  • Intestine(4.8)
  • Blood(4.7)
  • Skin(4.3)
  • Nervous system(4.3)
  • Eye(4.1)
  • Pancreas(3.8)
  • Liver(3.4)
  • Muscle(3.3)
  • Spleen(2.6)
  • Kidney(2.6)
  • Bone marrow(2.3)
  • Lymph node(2.2)
genes like me logo Genes that share expression patterns with CD300LF: view

No data available for Phenotype-based relationships between genes and organs from Gene ORGANizer for CD300LF Gene

Orthologs for CD300LF Gene

This gene was present in the common ancestor of chordates.

Orthologs for CD300LF Gene

Organism Taxonomy Gene Similarity Type Details
Chimpanzee
(Pan troglodytes)
Mammalia CD300LF 30 31
  • 98.47 (n)
OneToOne
Dog
(Canis familiaris)
Mammalia CD300LF 30
  • 74.82 (n)
-- 31
  • 54 (a)
ManyToMany
-- 31
  • 44 (a)
ManyToMany
-- 31
  • 42 (a)
ManyToMany
Mouse
(Mus musculus)
Mammalia Cd300lf 30 17 31
  • 70.79 (n)
ManyToMany
Gm11711 31
  • 33 (a)
ManyToMany
Cd300lh 31
  • 33 (a)
ManyToMany
Gm11710 31
  • 33 (a)
ManyToMany
Cd300ld 31
  • 32 (a)
ManyToMany
Gm11709 31
  • 29 (a)
ManyToMany
Cow
(Bos Taurus)
Mammalia CD300LF 30
  • 68.23 (n)
-- 31
  • 47 (a)
ManyToMany
-- 31
  • 41 (a)
ManyToMany
-- 31
  • 39 (a)
ManyToMany
Rat
(Rattus norvegicus)
Mammalia Cd300lf 30
  • 66.9 (n)
Platypus
(Ornithorhynchus anatinus)
Mammalia -- 31
  • 44 (a)
ManyToMany
-- 31
  • 40 (a)
ManyToMany
-- 31
  • 36 (a)
ManyToMany
-- 31
  • 34 (a)
ManyToMany
-- 31
  • 30 (a)
ManyToMany
Oppossum
(Monodelphis domestica)
Mammalia -- 31
  • 36 (a)
OneToMany
Chicken
(Gallus gallus)
Aves -- 31
  • 26 (a)
OneToMany
Lizard
(Anolis carolinensis)
Reptilia -- 31
  • 37 (a)
ManyToMany
-- 31
  • 26 (a)
ManyToMany
Species where no ortholog for CD300LF was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Eremothecium gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • Alpha proteobacteria (Wolbachia pipientis)
  • Amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • Baker's yeast (Saccharomyces cerevisiae)
  • Barley (Hordeum vulgare)
  • Beta proteobacteria (Neisseria meningitidis)
  • Bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • Common water flea (Daphnia pulex)
  • Corn (Zea mays)
  • E. coli (Escherichia coli)
  • Filamentous fungi (Aspergillus nidulans)
  • Firmicute Bacteria (Streptococcus pneumoniae)
  • Fission Yeast (Schizosaccharomyces pombe)
  • Fruit Fly (Drosophila melanogaster)
  • Green Algae (Chlamydomonas reinhardtii)
  • Honey Bee (Apis mellifera)
  • K. Lactis Yeast (Kluyveromyces lactis)
  • Loblloly Pine (Pinus taeda)
  • Malaria Parasite (Plasmodium falciparum)
  • Medicago Trunc (Medicago Truncatula)
  • Moss (Physcomitrella patens)
  • Orangutan (Pongo pygmaeus)
  • Pig (Sus scrofa)
  • Rainbow Trout (Oncorhynchus mykiss)
  • Rice (Oryza sativa)
  • Rice Blast Fungus (Magnaporthe grisea)
  • Schistosome Parasite (Schistosoma mansoni)
  • Sea Anemone (Nematostella vectensis)
  • Sea Vase (Ciona intestinalis)
  • Sea Squirt (Ciona savignyi)
  • Sea Urchin (Strongylocentrotus purpuratus)
  • Sorghum (Sorghum bicolor)
  • Soybean (Glycine max)
  • Stem Rust Fungus (Puccinia graminis)
  • Sugarcane (Saccharum officinarum)
  • Thale Cress (Arabidopsis thaliana)
  • Tomato (Lycopersicon esculentum)
  • Toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • Tropical Clawed Frog (Silurana tropicalis)
  • Wheat (Triticum aestivum)
  • Worm (Caenorhabditis elegans)
  • Zebrafish (Danio rerio)

Evolution for CD300LF Gene

ENSEMBL:
Gene Tree for CD300LF (if available)
TreeFam:
Gene Tree for CD300LF (if available)
Aminode:
Evolutionary constrained regions (ECRs) for CD300LF: view image

Paralogs for CD300LF Gene

(5) SIMAP similar genes for CD300LF Gene using alignment to 2 proteins:

  • CLM1_HUMAN
  • J3KS52_HUMAN
genes like me logo Genes that share paralogs with CD300LF: view

Variants for CD300LF Gene

Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for CD300LF Gene

SNP ID Clinical significance and condition Chr 17 pos Variation AA Info Type
rs2034310 - p.Gln218Arg
rs35489971 - p.Val19Ala

Additional dbSNP identifiers (rs#s) for CD300LF Gene

Structural Variations from Database of Genomic Variants (DGV) for CD300LF Gene

Variant ID Type Subtype PubMed ID
dgv3282n100 CNV gain 25217958
dgv5768n54 CNV gain 21841781
esv2751770 CNV gain 17911159
esv33995 CNV loss 17666407
esv3573820 CNV gain 25503493
esv3641230 CNV gain 21293372

Variation tolerance for CD300LF Gene

Residual Variation Intolerance Score: 82.4% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 0.79; 16.62% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for CD300LF Gene

Human Gene Mutation Database (HGMD)
CD300LF
SNPedia medical, phenotypic, and genealogical associations of SNPs for
CD300LF

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for CD300LF Gene

Disorders for CD300LF Gene

MalaCards: The human disease database

(2) MalaCards diseases for CD300LF Gene - From: DISEASES

Disorder Aliases PubMed IDs
noonan syndrome 7
  • ns7
noonan syndrome 6
  • ns6
- elite association - COSMIC cancer census association via MalaCards

Additional Disease Information for CD300LF

Genetic Association Database
(GAD)
Human Genome Epidemiology Navigator
(HuGE)
ATLAS of Genetics and Cytogenetics in Oncology and Haematology
Open Targets Platform
genes like me logo Genes that share disorders with CD300LF: view

No data available for UniProtKB/Swiss-Prot and Genatlas for CD300LF Gene

Publications for CD300LF Gene

  1. IgSF13, a novel human inhibitory receptor of the immunoglobulin superfamily, is preferentially expressed in dendritic cells and monocytes. (PMID: 15184070) Sui L … Cao X (Biochemical and biophysical research communications 2004) 3 4 23
  2. The secreted protein discovery initiative (SPDI), a large-scale effort to identify novel human secreted and transmembrane proteins: a bioinformatics assessment. (PMID: 12975309) Clark HF … Gray A (Genome research 2003) 2 3 4
  3. Sphingomyelin and ceramide are physiological ligands for human LMIR3/CD300f, inhibiting FcεRI-mediated mast cell activation. (PMID: 24035150) Izawa K … Kitaura J (The Journal of allergy and clinical immunology 2014) 3 4
  4. CD300a and CD300f differentially regulate the MyD88 and TRIF-mediated TLR signalling pathways through activation of SHP-1 and/or SHP-2 in human monocytic cell lines. (PMID: 22043923) Kim EJ … Lee WH (Immunology 2012) 3 4
  5. Novel loci, including those related to Crohn disease, psoriasis, and inflammation, identified in a genome-wide association study of fibrinogen in 17 686 women: the Women's Genome Health Study. (PMID: 20031577) Danik JS … Ridker PM (Circulation. Cardiovascular genetics 2009) 3 41

Products for CD300LF Gene

  • Boster Bio Antibodies for CD300LF
  • Boster Bio ELISA Kits for CD300LF

Sources for CD300LF Gene