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    IFNLR1 interferon lambda receptor 1 [ Homo sapiens (human) ]

    Gene ID: 163702, updated on 10-Dec-2024

    Summary

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    Official Symbol
    IFNLR1provided by HGNC
    Official Full Name
    interferon lambda receptor 1provided by HGNC
    Primary source
    HGNC:HGNC:18584
    See related
    Ensembl:ENSG00000185436 MIM:607404; AllianceGenome:HGNC:18584
    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
    IFNLR; LICR2; IL28RA; CRF2/12; IL-28R1
    Summary
    The protein encoded by this gene belongs to the class II cytokine receptor family. This protein forms a receptor complex with interleukine 10 receptor, beta (IL10RB). The receptor complex has been shown to interact with three closely related cytokines, including interleukin 28A (IL28A), interleukin 28B (IL28B), and interleukin 29 (IL29). The expression of all three cytokines can be induced by viral infection. The cells overexpressing this protein have been found to have enhanced responses to IL28A and IL29, but decreased response to IL28B. Three alternatively spliced transcript variants encoding distinct isoforms have been reported. [provided by RefSeq, Jul 2008]
    Expression
    Broad expression in small intestine (RPKM 5.6), lymph node (RPKM 4.0) and 22 other tissues See more
    Orthologs
    mouse all
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    Genomic context

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    See IFNLR1 in Genome Data Viewer
    Location:
    1p36.11
    Exon count:
    9
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 1 NC_000001.11 (24154168..24187289, complement)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 1 NC_060925.1 (23991876..24024975, complement)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (24480658..24513779, complement)

    Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene myomesin 3 Neighboring gene uncharacterized LOC105376864 Neighboring gene Sharpr-MPRA regulatory region 3135 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:24433598-24434138 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:24438827-24439335 Neighboring gene Sharpr-MPRA regulatory region 13639 Neighboring gene interleukin 22 receptor subunit alpha 1 Neighboring gene uncharacterized LOC124903879 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:24479387-24479984 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:24479985-24480582 Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr1:24480583-24481180 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 431 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 390 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 391 Neighboring gene long intergenic non-protein coding RNA 2800 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 392 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 393 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:24581311-24581877 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:24604941-24605442 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:24612590-24613188 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:24613189-24613787 Neighboring gene ReSE screen-validated silencer GRCh37_chr1:24624394-24624641 Neighboring gene Sharpr-MPRA regulatory region 347 Neighboring gene GRHL3 antisense RNA 1 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 432 Neighboring gene grainyhead like transcription factor 3

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Tissue-specific circular RNA induction during human fetal development
    • Description: 35 human fetal samples from 6 tissues (3 - 7 replicates per tissue) collected between 10 and 20 weeks gestational time were sequenced using Illumina TruSeq Stranded Total RNA
    • BioProject: PRJNA270632
    • Publication: PMID 26076956
    • Analysis date: Mon Apr 2 22:54:59 2018

    Bibliography

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    Related articles in PubMed

    1. IL28RA polymorphism (rs10903035) is associated with insulin resistance in HIV/HCV-coinfected patients. Jiménez-Sousa MA, et al. J Viral Hepat, 2014 Mar. PMID 24438680
    2. [Herniation of the muscles in lower limbs in children]. Rejmanowski T. Chir Narzadow Ruchu Ortop Pol, 1976. PMID 1248321
    3. Cloning of a new type II cytokine receptor activating signal transducer and activator of transcription (STAT)1, STAT2 and STAT3. Dumoutier L, et al. Biochem J, 2003 Mar 1. PMID 12521379, Free PMC Article
    4. Analysis of the variations in IL-28RA gene and their association with allergic rhinitis. Chae SC, et al. Exp Mol Med, 2006 Jun 30. PMID 16819289
    5. Genetic variation in IL28RA is associated with the outcomes of HCV infection in a high-risk Chinese population. Cui Q, et al. Infect Genet Evol, 2011 Oct. PMID 21742059

    See all (53) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Interferon lambda receptor-1 isoforms differentially influence gene expression and HBV replication in stem cell-derived hepatocytes.
      Title: Interferon lambda receptor-1 isoforms differentially influence gene expression and HBV replication in stem cell-derived hepatocytes.
    2. Influence of Canonical and Non-Canonical IFNLR1 Isoform Expression on Interferon Lambda Signaling.
      Title: Influence of Canonical and Non-Canonical IFNLR1 Isoform Expression on Interferon Lambda Signaling.
    3. Downregulated expression of IL28RA is involved in the pathogenesis of pancreatic ductal adenocarcinoma.
      Title: Downregulated expression of IL‑28RA is involved in the pathogenesis of pancreatic ductal adenocarcinoma.
    4. Interferon III-related IL28RA variant is associated with rheumatoid arthritis and systemic lupus erythematosus and specific disease sub-phenotypes.
      Title: Interferon III-related IL28RA variant is associated with rheumatoid arthritis and systemic lupus erythematosus and specific disease sub-phenotypes.
    5. Association of TNFRSF1A and IFNLR1 Gene Polymorphisms with the Risk of Developing Breast Cancer and Clinical Pathologic Features.
      Title: Association of TNFRSF1A and IFNLR1 Gene Polymorphisms with the Risk of Developing Breast Cancer and Clinical Pathologic Features.
    6. Genetic Polymorphisms of the IFNLR1 Gene Correlate with HCV Infection and Biochemical Features of Chronic HCV Patients in Yunnan, China.
      Title: Genetic Polymorphisms of the IFNLR1 Gene Correlate with HCV Infection and Biochemical Features of Chronic HCV Patients in Yunnan, China.
    7. Significance of IL28RA in diagnosis of early pancreatic cancer and its regulation to pancreatic cancer cells by JAK/STAT signaling pathway - effects of IL28RA on pancreatic cancer.
      Title: Significance of IL28RA in diagnosis of early pancreatic cancer and its regulation to pancreatic cancer cells by JAK/STAT signaling pathway - effects of IL28RA on pancreatic cancer.
    8. Differential expression of interferon-lambda receptor 1 splice variants determines the magnitude of the antiviral response induced by interferon-lambda 3 in human immune cells.
      Title: Differential expression of interferon-lambda receptor 1 splice variants determines the magnitude of the antiviral response induced by interferon-lambda 3 in human immune cells.
    9. This study was designed to explore the genetic etiology of deafness in a large Chinese family with autosomal dominant, nonsyndromic, progressive sensorineural hearing loss (ADNSHL). Inner ear expression of Ifnlr1 was investigated by immunostaining in mice. ifnlr1 Morpholino knockdown Zebrafish were constructed to explore the deafness mechanism.. IFNLR1 mutations are associated with ADNSHL
      Title: Mutation of IFNLR1, an interferon lambda receptor 1, is associated with autosomal-dominant non-syndromic hearing loss.
    10. Interferon lambda receptor 1 (IFNLR1) mRNA is increased in human rhinovirus (HRV) bronchiolitis infants. Increased IFNLR1 transcript levels characterized HRV-infected infants with more severe bronchiolitis and blood eosinophilia. IFNLR1 transcript is increased in infants infected with HRVC species.
      Title: Interferon lambda receptor 1 (IFNL1R) transcript is highly expressed in rhinovirus bronchiolitis and correlates with disease severity.
    Submit: New GeneRIF Correction See all GeneRIFs (35)

    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
    Genome-wide meta-analysis identifies variants associated with platinating agent susceptibility across populations
    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)

    Pathways from PubChem

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    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 cytokine receptor activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    contributes_to cytokine receptor activity NAS
    Non-traceable Author Statement
    more info
    		 PubMed 
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in cellular response to virus NAS
    Non-traceable Author Statement
    more info
    		 PubMed 
    involved_in cytokine-mediated signaling pathway IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in defense response to virus ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in mucosal immune response ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in negative regulation of cell population proliferation NAS
    Non-traceable Author Statement
    more info
    		 PubMed 
    involved_in positive regulation of cellular respiration IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in regulation of defense response to virus by host IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in response to type III interferon ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in type III interferon-mediated signaling pathway NAS
    Non-traceable Author Statement
    more info
    		 PubMed 
    Component Evidence Code Pubs
    part_of interleukin-28 receptor complex IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in membrane NAS
    Non-traceable Author Statement
    more info
    		 PubMed 
    is_active_in plasma membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in plasma membrane TAS
    Traceable Author Statement
    more info
    		  

    General protein information

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    Preferred Names
    interferon lambda receptor 1
    Names
    CRF2-12
    IFN-lambda receptor 1
    IFN-lambda-R1
    IL-28 receptor subunit alpha
    IL-28R-alpha
    IL-28RA
    class II cytokine receptor CRF2/12
    cytokine receptor class-II member 12
    cytokine receptor family 2 member 12
    interleukin 28 alpha receptor
    interleukin 28 receptor A
    interleukin 28 receptor, alpha (interferon, lambda receptor)
    interleukin or cytokine receptor 2
    interleukin-28 receptor subunit alpha
    likely interleukin or cytokine receptor 2

    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_170743.4 → NP_734464.1  interferon lambda receptor 1 isoform 1 precursor

      See identical proteins and their annotated locations for NP_734464.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (1) represents the longest transcript and it encodes the longest protein (isoform 1).
      Source sequence(s)
      AF439325, AL590683, BC140872
      Consensus CDS
      CCDS248.1
      UniProtKB/Swiss-Prot
      Q5VTX5, Q5VTX7, Q5VTX8, Q6ZML8, Q8IU57, Q8IV66, Q8IZI7, Q8IZI8
      UniProtKB/TrEMBL
      H2DF04
      Related
      ENSP00000327824.1, ENST00000327535.6
      Conserved Domains (1) summary
      pfam01108
      Location:19 → 111
      Tissue_fac; Tissue factor

    2. NM_173064.3 → NP_775087.1  interferon lambda receptor 1 isoform 2 precursor

      See identical proteins and their annotated locations for NP_775087.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (2) lacks an in-frame 3' coding segment, compared to variant 1. The resulting isoform (2) has a shorter C-terminus when it is compared to isoform 1.
      Source sequence(s)
      AF439325, AL590683, AY129152, CN289861
      Consensus CDS
      CCDS249.1
      UniProtKB/TrEMBL
      H2DF04
      Related
      ENSP00000363542.3, ENST00000374421.7
      Conserved Domains (1) summary
      pfam01108
      Location:19 → 111
      Tissue_fac; Tissue factor

    3. NM_173065.3 → NP_775088.1  interferon lambda receptor 1 isoform 3 precursor

      See identical proteins and their annotated locations for NP_775088.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (3) lacks one alternate segment and contains another in the 3' coding region which leads to a translation frameshift, as compared to variant 1. The resulting isoform (3) has a distinct and shorter C-terminus, as compared to isoform 1.
      Source sequence(s)
      AF439325, AJ534331, AL590683, CN289861
      Consensus CDS
      CCDS250.1
      UniProtKB/Swiss-Prot
      Q8IU57
      Related
      ENSP00000328994.2, ENST00000327575.6
      Conserved Domains (1) summary
      pfam01108
      Location:19 → 111
      Tissue_fac; Tissue factor

    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_000001.11 Reference GRCh38.p14 Primary Assembly

      Range
      24154168..24187289 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_017000479.2 → XP_016855968.1  interferon lambda receptor 1 isoform X2

      UniProtKB/TrEMBL
      H2DF04

    2. XM_006710394.5 → XP_006710457.2  interferon lambda receptor 1 isoform X1

      UniProtKB/TrEMBL
      H2DF04
      Conserved Domains (1) summary
      cl21522
      Location:29 → 80
      FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060925.1 Alternate T2T-CHM13v2.0

      Range
      23991876..24024975 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054334738.1 → XP_054190713.1  interferon lambda receptor 1 isoform X2

      UniProtKB/TrEMBL
      H2DF04

    2. XM_054334737.1 → XP_054190712.1  interferon lambda receptor 1 isoform X1

      UniProtKB/TrEMBL
      H2DF04

    3. XM_054334739.1 → XP_054190714.1  interferon lambda receptor 1 isoform X2

      UniProtKB/TrEMBL
      H2DF04
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q8IU57.1 GenPept UniProtKB/Swiss-Prot:Q8IU57

    Gene LinkOut

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

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