This gene encodes an immunoglobulin-like cell surface protein that is expressed predominantly on plasmacytoid dendritic cells (PDCs) and modulates the function of these cells in the immune response. Expression of this gene is downregulated by interleukin 3 (IL3). This gene is one of a cluster of highly related genes located at chromosomal region 19q13.4. [provided by RefSeq, Ja... See more...

Aliases for LILRA4 Gene

Aliases for LILRA4 Gene

  • Leukocyte Immunoglobulin Like Receptor A4 2 3 5
  • ILT7 2 3 4
  • Leukocyte Immunoglobulin-Like Receptor, Subfamily A (With TM Domain), Member 4 2 3
  • Leukocyte Immunoglobulin-Like Receptor Subfamily A Member 4 3 4
  • CD85 Antigen-Like Family Member G 3 4
  • Immunoglobulin-Like Transcript 7 3 4
  • Leucocyte Ig-Like Receptor A4 2 3
  • CD85g 2 3
  • Leukocyte Immunoglobulin-Like Receptor, Subfamily A (Without TM Domain), Member 4 3
  • CD85g Antigen 4
  • LILRA4 5
  • ILT-7 4

External Ids for LILRA4 Gene

Previous GeneCards Identifiers for LILRA4 Gene

  • GC19M059540
  • GC19M054844
  • GC19M051166

Summaries for LILRA4 Gene

Entrez Gene Summary for LILRA4 Gene

  • This gene encodes an immunoglobulin-like cell surface protein that is expressed predominantly on plasmacytoid dendritic cells (PDCs) and modulates the function of these cells in the immune response. Expression of this gene is downregulated by interleukin 3 (IL3). This gene is one of a cluster of highly related genes located at chromosomal region 19q13.4. [provided by RefSeq, Jan 2015]

GeneCards Summary for LILRA4 Gene

LILRA4 (Leukocyte Immunoglobulin Like Receptor A4) is a Protein Coding gene. Diseases associated with LILRA4 include Pitt-Hopkins Syndrome. Among its related pathways are Innate Immune System and Class I MHC mediated antigen processing and presentation. An important paralog of this gene is LILRA6.

UniProtKB/Swiss-Prot Summary for LILRA4 Gene

  • Functions coreceptor to limit the innate immune responses to viral infections; signaling occurs via FCER1G (PubMed:16735691, PubMed:19564354). Down-regulates the production of IFNA1, IFNA2, IFNA4, IFNB1 and TNF by plasmacytoid dendritic cells that have been exposed to influenza virus or cytidine-phosphate-guanosine (CpG) dinucleotides, indicating it functions as negative regulator of TLR7 and TLR9 signaling cascades (PubMed:16735691, PubMed:19564354, PubMed:24586760). Down-regulates interferon production in response to interaction with BST2 on HIV-1 infected cells (PubMed:26172439). Activates a signaling cascade in complex with FCER1G that results in phosphorylation of Src family and Syk kinases and thereby triggers mobilization of intracellular Ca(2+) (PubMed:16735691, PubMed:19564354). Does not interfere with the differentiation of plasmacytoid dendritic cells into antigen-presenting cells (PubMed:24586760).

Gene Wiki entry for LILRA4 Gene

Additional gene information for LILRA4 Gene

No data available for CIViC Summary , Tocris Summary , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for LILRA4 Gene

Genomics for LILRA4 Gene

GeneHancer (GH) Regulatory Elements Pubs

Promoters and enhancers for LILRA4 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
GH19J054339 Enhancer 0.5 ENCODE 600.7 -0.7 -743 0.9 EED IKZF1 SPI1 EBF1 EZH2 POLR2A BHLHE40 ENSG00000275210 LILRA4 ENSG00000268864 DNAAF3 NONHSAG026514.2 LAIR1
GH19J054340 Enhancer 0.3 ENCODE 600.7 0.0 -43 0.2 SPI1 MLLT1 ENSG00000275210 LILRA4 NONHSAG026514.2 LAIR1
GH19J054199 Promoter/Enhancer 2.6 EPDnew FANTOM5 Ensembl ENCODE CraniofacialAtlas dbSUPER 15.1 +133.6 133573 12.4 BRCA1 ARHGAP35 SP1 HNRNPL CREB1 GATAD2A PRDM10 ZNF629 REST TFE3 RPS9 PRPF31 LENG8-AS1 LENG8 CNOT3 ZNF525 ENSG00000235681 ZNF845 ZNF761 ZNF765
GH19J054220 Promoter 0.7 EPDnew Ensembl 14.3 +116.8 116761 1.6 LILRB3 MN297612 LILRA4 RPS9 LILRA6 lnc-LILRA6-3
GH19J054247 Enhancer 0.7 ENCODE dbSUPER 8.1 +91.1 91132 1.5 EED ZKSCAN1 NR2F2 IKZF1 BCOR POLR2A ZMYM3 SPI1 SMARCA5 ETV6 ENSG00000249189 lnc-LILRB5-1 LILRA4 NONHSAG026507.2 LILRA6 LILRB5 RPS9
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around LILRA4 on the GeneHancer Hub at the UCSC Golden Path

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for LILRA4

Top Transcription factor binding sites by QIAGEN in the LILRA4 gene promoter:
  • AML1a
  • AREB6
  • ER-alpha
  • POU2F1
  • POU2F1a
  • SREBP-1a
  • SREBP-1b
  • SREBP-1c

Genomic Locations for LILRA4 Gene

Genomic Locations for LILRA4 Gene
chr19:54,333,185-54,339,162
(GRCh38/hg38)
Size:
5,978 bases
Orientation:
Minus strand
chr19:54,844,456-54,850,421
(GRCh37/hg19)
Size:
5,966 bases
Orientation:
Minus strand

Genomic View for LILRA4 Gene

Genes around LILRA4 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
LILRA4 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for LILRA4 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for LILRA4 Gene

Proteins for LILRA4 Gene

  • Protein details for LILRA4 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    P59901-LIRA4_HUMAN
    Recommended name:
    Leukocyte immunoglobulin-like receptor subfamily A member 4
    Protein Accession:
    P59901
    Secondary Accessions:
    • Q32MC4

    Protein attributes for LILRA4 Gene

    Size:
    499 amino acids
    Molecular mass:
    55165 Da
    Quaternary structure:
    • Interacts with FCER1G; this stabilizes the expression of both proteins at the cell membrane (PubMed:16735691). Interacts with BST2; leads to activation of LILRA4-mediated signaling and down-regulation of the innate immune response to viral pathogens (PubMed:19564354, PubMed:26172439).

    Alternative splice isoforms for LILRA4 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for LILRA4 Gene

Post-translational modifications for LILRA4 Gene

  • Glycosylation at Asn138, Asn239, Asn279, and Asn300
  • Modification sites at PhosphoSitePlus

Other Protein References for LILRA4 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for LILRA4 Gene

Domains & Families for LILRA4 Gene

Gene Families for LILRA4 Gene

Protein Domains for LILRA4 Gene

Suggested Antigen Peptide Sequences for LILRA4 Gene

GenScript: Design optimal peptide antigens:
  • Immunoglobulin-like transcript 7 (LIRA4_HUMAN)
genes like me logo Genes that share domains with LILRA4: view

No data available for Graphical View of Domain Structure and UniProtKB/Swiss-Prot for LILRA4 Gene

Function for LILRA4 Gene

Molecular function for LILRA4 Gene

UniProtKB/Swiss-Prot Function:
Functions coreceptor to limit the innate immune responses to viral infections; signaling occurs via FCER1G (PubMed:16735691, PubMed:19564354). Down-regulates the production of IFNA1, IFNA2, IFNA4, IFNB1 and TNF by plasmacytoid dendritic cells that have been exposed to influenza virus or cytidine-phosphate-guanosine (CpG) dinucleotides, indicating it functions as negative regulator of TLR7 and TLR9 signaling cascades (PubMed:16735691, PubMed:19564354, PubMed:24586760). Down-regulates interferon production in response to interaction with BST2 on HIV-1 infected cells (PubMed:26172439). Activates a signaling cascade in complex with FCER1G that results in phosphorylation of Src family and Syk kinases and thereby triggers mobilization of intracellular Ca(2+) (PubMed:16735691, PubMed:19564354). Does not interfere with the differentiation of plasmacytoid dendritic cells into antigen-presenting cells (PubMed:24586760).

Phenotypes From GWAS Catalog for LILRA4 Gene

Gene Ontology (GO) - Molecular Function for LILRA4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005102 signaling receptor binding IPI 16735691
GO:0005515 protein binding IPI 19564354
GO:0015026 coreceptor activity IDA 16735691
genes like me logo Genes that share ontologies with LILRA4: view
genes like me logo Genes that share phenotypes with LILRA4: view

Animal Model Products

CRISPR Products

miRNA for LILRA4 Gene

miRTarBase miRNAs that target LILRA4

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for LILRA4

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for LILRA4 Gene

Localization for LILRA4 Gene

Subcellular locations from UniProtKB/Swiss-Prot for LILRA4 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 LILRA4 gene
Compartment Confidence
plasma membrane 5
extracellular 2
endosome 2
lysosome 2
cytoskeleton 1
mitochondrion 1
nucleus 1
endoplasmic reticulum 1
cytosol 1
golgi apparatus 1
peroxisome 0

Gene Ontology (GO) - Cellular Components for LILRA4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005886 plasma membrane IEA --
GO:0005887 integral component of plasma membrane IDA 16735691
GO:0016020 membrane IEA --
GO:0016021 integral component of membrane IEA --
GO:0032998 Fc-epsilon receptor I complex IDA 16735691
genes like me logo Genes that share ontologies with LILRA4: view

No data available for Subcellular locations from the Human Protein Atlas (HPA) for LILRA4 Gene

Pathways & Interactions for LILRA4 Gene

genes like me logo Genes that share pathways with LILRA4: view

Gene Ontology (GO) - Biological Process for LILRA4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0002376 immune system process IEA --
GO:0032687 negative regulation of interferon-alpha production IMP 16735691
GO:0032720 negative regulation of tumor necrosis factor production IMP 16735691
GO:0034156 negative regulation of toll-like receptor 7 signaling pathway IMP 16735691
GO:0034164 negative regulation of toll-like receptor 9 signaling pathway IMP 16735691
genes like me logo Genes that share ontologies with LILRA4: view

No data available for SIGNOR curated interactions for LILRA4 Gene

Drugs & Compounds for LILRA4 Gene

(1) Drugs for LILRA4 Gene - From: Novoseek

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
genes like me logo Genes that share compounds with LILRA4: view

Transcripts for LILRA4 Gene

mRNA/cDNA for LILRA4 Gene

1 REFSEQ mRNAs :
8 NCBI additional mRNA sequence :
3 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 LILRA4

Alternative Splicing Database (ASD) splice patterns (SP) for LILRA4 Gene

No ASD Table

Relevant External Links for LILRA4 Gene

GeneLoc Exon Structure for
LILRA4

Expression for LILRA4 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for LILRA4 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for LILRA4 Gene

This gene is overexpressed in Spleen (x15.0), Whole Blood (x13.3), and Brain - Spinal cord (cervical c-1) (x5.2).

Protein differential expression in normal tissues from HIPED for LILRA4 Gene

This gene is overexpressed in Nasal epithelium (40.6), Lavage (20.2), and Breast (6.6).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB and MOPED for LILRA4 Gene



Transcriptomic regulation report from SPP (The Signaling Pathways Project) for LILRA4

SOURCE GeneReport for Unigene cluster for LILRA4 Gene:

Hs.406708

mRNA Expression by UniProt/SwissProt for LILRA4 Gene:

P59901-LIRA4_HUMAN
Tissue specificity: Detected on plasmacytoid dendritic cells (at protein level). Detected on plasmacytoid dendritic cells, but not on monocytes or B cells.

Evidence on tissue expression from TISSUES for LILRA4 Gene

  • Spleen(4.7)
  • Pancreas(4.1)
  • Lymph node(2.8)
  • Blood(2.4)
  • Bone marrow(2.3)
genes like me logo Genes that share expression patterns with LILRA4: view

Primer Products

No data available for Protein tissue co-expression partners and Phenotype-based relationships between genes and organs from Gene ORGANizer for LILRA4 Gene

Orthologs for LILRA4 Gene

This gene was present in the common ancestor of chordates.

Orthologs for LILRA4 Gene

Organism Taxonomy Gene Similarity Type Details
Chimpanzee
(Pan troglodytes)
Mammalia LILRA4 30 31
  • 98.33 (n)
OneToOne
Cow
(Bos Taurus)
Mammalia -- 31
  • 62 (a)
ManyToMany
LILRA4 31
  • 55 (a)
ManyToMany
-- 31
  • 55 (a)
ManyToMany
-- 31
  • 47 (a)
ManyToMany
-- 31
  • 45 (a)
ManyToMany
-- 31
  • 44 (a)
ManyToMany
-- 31
  • 43 (a)
ManyToMany
-- 31
  • 43 (a)
ManyToMany
-- 31
  • 40 (a)
ManyToMany
-- 31
  • 33 (a)
ManyToMany
-- 31
  • 26 (a)
ManyToMany
Dog
(Canis familiaris)
Mammalia -- 31
  • 43 (a)
ManyToMany
-- 31
  • 41 (a)
ManyToMany
Mouse
(Mus musculus)
Mammalia Lilra6 31
  • 35 (a)
ManyToMany
Lizard
(Anolis carolinensis)
Reptilia -- 31
  • 20 (a)
OneToMany
Species where no ortholog for LILRA4 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)
  • Chicken (Gallus gallus)
  • 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)
  • Oppossum (Monodelphis domestica)
  • Orangutan (Pongo pygmaeus)
  • Pig (Sus scrofa)
  • Platypus (Ornithorhynchus anatinus)
  • Rainbow Trout (Oncorhynchus mykiss)
  • Rat (Rattus norvegicus)
  • 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 LILRA4 Gene

ENSEMBL:
Gene Tree for LILRA4 (if available)
TreeFam:
Gene Tree for LILRA4 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for LILRA4: view image

Paralogs for LILRA4 Gene

Pseudogenes.org Pseudogenes for LILRA4 Gene

genes like me logo Genes that share paralogs with LILRA4: view

Variants for LILRA4 Gene

Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for LILRA4 Gene

SNP ID Clinical significance and condition Chr 19 pos Variation AA Info Type
rs10419832 - p.Ile155Val
rs2241384 - p.Pro27Leu

Additional dbSNP identifiers (rs#s) for LILRA4 Gene

Structural Variations from Database of Genomic Variants (DGV) for LILRA4 Gene

Variant ID Type Subtype PubMed ID
dgv3660n100 CNV gain 25217958
dgv3661n100 CNV gain+loss 25217958
dgv3662n100 CNV gain 25217958
dgv3663n100 CNV gain 25217958
dgv6549n54 CNV gain 21841781
esv2758771 CNV gain+loss 17122850
esv2763032 CNV gain+loss 21179565
esv3583531 CNV loss 25503493
esv3644796 CNV loss 21293372
esv3644797 CNV gain 21293372
esv3644801 CNV loss 21293372
esv3644802 CNV loss 21293372
nsv1148744 OTHER inversion 26484159
nsv428371 CNV gain+loss 18775914
nsv527908 CNV gain 19592680
nsv580236 CNV loss 21841781
nsv833878 CNV loss 17160897

Variation tolerance for LILRA4 Gene

Residual Variation Intolerance Score: 96.3% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 4.39; 63.60% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for LILRA4 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
LILRA4

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for LILRA4 Gene

Disorders for LILRA4 Gene

MalaCards: The human disease database

(1) MalaCards diseases for LILRA4 Gene - From: DISEASES

Disorder Aliases PubMed IDs
pitt-hopkins syndrome
  • phs
- elite association - COSMIC cancer census association via MalaCards

Additional Disease Information for LILRA4

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 LILRA4: view

No data available for UniProtKB/Swiss-Prot and Genatlas for LILRA4 Gene

Publications for LILRA4 Gene

  1. Regulation of TLR7/9 responses in plasmacytoid dendritic cells by BST2 and ILT7 receptor interaction. (PMID: 19564354) Cao W … Liu YJ (The Journal of experimental medicine 2009) 3 4 23
  2. Nitroproteins from a human pituitary adenoma tissue discovered with a nitrotyrosine affinity column and tandem mass spectrometry. (PMID: 16777052) Zhan X … Desiderio DM (Analytical biochemistry 2006) 3 4 23
  3. Plasmacytoid dendritic cell-specific receptor ILT7-Fc epsilonRI gamma inhibits Toll-like receptor-induced interferon production. (PMID: 16735691) Cao W … Liu YJ (The Journal of experimental medicine 2006) 3 4 23
  4. Vpu Exploits the Cross-Talk between BST2 and the ILT7 Receptor to Suppress Anti-HIV-1 Responses by Plasmacytoid Dendritic Cells. (PMID: 26172439) Bego MG … Cohen ÉA (PLoS pathogens 2015) 3 4
  5. Effect of immunoglobin-like transcript 7 cross-linking on plasmacytoid dendritic cells differentiation into antigen-presenting cells. (PMID: 24586760) Tavano B … Boasso A (PloS one 2014) 3 4

Products for LILRA4 Gene

Sources for LILRA4 Gene