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    PLA2R1 phospholipase A2 receptor 1 [ Homo sapiens (human) ]

    Gene ID: 22925, updated on 17-Mar-2024

    Summary

    Official Symbol
    PLA2R1provided by HGNC
    Official Full Name
    phospholipase A2 receptor 1provided by HGNC
    Primary source
    HGNC:HGNC:9042
    See related
    Ensembl:ENSG00000153246 MIM:604939; AllianceGenome:HGNC:9042
    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
    PLA2R; PLA2-R; PLA2IR; CLEC13C; PLA2G1R
    Summary
    This gene represents a phospholipase A2 receptor. The encoded protein likely exists as both a transmembrane form and a soluble form. The transmembrane receptor may play a role in clearance of phospholipase A2, thereby inhibiting its action. Polymorphisms at this locus have been associated with susceptibility to idiopathic membranous nephropathy. Alternatively spliced transcript variants encoding different isoforms have been identified.[provided by RefSeq, Sep 2010]
    Expression
    Broad expression in thyroid (RPKM 11.6), kidney (RPKM 5.9) and 16 other tissues See more
    Orthologs
    NEW
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    Genomic context

    Location:
    2q24.2
    Exon count:
    36
    Annotation release Status Assembly Chr Location
    RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 2 NC_000002.12 (159923933..160062615, complement)
    RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 2 NC_060926.1 (160390236..160520476, complement)
    105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 2 NC_000002.11 (160788517..160919126, complement)

    Chromosome 2 - NC_000002.12Genomic Context describing neighboring genes Neighboring gene LY75-CD302 readthrough Neighboring gene uncharacterized LOC124906083 Neighboring gene CD302 molecule Neighboring gene lymphocyte antigen 75 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 16688 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 16689 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 12045 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 16690 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 16691 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 16692 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 16693 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 16694 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 16695 Neighboring gene ReSE screen-validated silencer GRCh37_chr2:160761228-160761469 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 12047 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 16696 Neighboring gene uncharacterized LOC105373717 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr2:160911725-160912406 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 16697 Neighboring gene NANOG-H3K4me1 hESC enhancer GRCh37_chr2:160982362-160982960 Neighboring gene integrin subunit beta 6 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr2:161037195-161037767 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr2:161037768-161038339 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 16698 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 16699 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 16700 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 16701 Neighboring gene ITGB6-RBMS1 intergenic CAGE-defined low expression enhancer Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_53984 Neighboring gene H3K27ac hESC enhancer GRCh37_chr2:161126614-161127223 Neighboring gene long intergenic non-protein coding RNA 2478

    Genomic regions, transcripts, and products

    Expression

    • 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

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Phenotypes

    EBI GWAS Catalog

    Description
    Genome-wide association of serum bilirubin levels in Korean population.
    EBI GWAS Catalog
    Risk HLA-DQA1 and PLA(2)R1 alleles in idiopathic membranous nephropathy.
    EBI GWAS Catalog

    Pathways from PubChem

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables carbohydrate binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables phospholipase binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables signaling receptor activity IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    Component Evidence Code Pubs
    located_in cell surface IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in extracellular region ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    is_active_in plasma membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in plasma membrane IDA
    Inferred from Direct Assay
    more info
    PubMed 
    part_of receptor complex IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    part_of receptor complex IDA
    Inferred from Direct Assay
    more info
    PubMed 

    General protein information

    Preferred Names
    secretory phospholipase A2 receptor
    Names
    180 kDa secretory phospholipase A2 receptor
    C-type lectin domain family 13 member C
    M-type receptor
    phospholipase A2 receptor 1, 180kD
    phospholipase A2 receptor 1, 180kDa

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    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_001007267.3NP_001007268.1  secretory phospholipase A2 receptor isoform 2 precursor

      See identical proteins and their annotated locations for NP_001007268.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (2) uses an alternate splice site in the 3' coding region, compared to variant 1, resulting in a shorter protein. It encodes a secreted isoform (2), which lacks a C-terminal transmembrane region found in isoform 1.
      Source sequence(s)
      AC080166, AC093873, AI672072, AL598405, BC140823, BP351340, W15508
      Consensus CDS
      CCDS42767.1
      UniProtKB/Swiss-Prot
      Q13018
      Related
      ENSP00000376524.1, ENST00000392771.1
      Conserved Domains (5) summary
      smart00059
      Location:171219
      FN2; Fibronectin type 2 domain
      cd00037
      Location:242356
      CLECT; C-type lectin (CTL)/C-type lectin-like (CTLD) domain
      smart00034
      Location:378502
      CLECT; C-type lectin (CTL) or carbohydrate-recognition domain (CRD)
      smart00458
      Location:43151
      RICIN; Ricin-type beta-trefoil
      cd00161
      Location:39119
      RICIN; Ricin-type beta-trefoil; Carbohydrate-binding domain formed from presumed gene triplication. The domain is found in a variety of molecules serving diverse functions such as enzymatic activity, inhibitory toxicity and signal transduction. Highly specific ...
    2. NM_001195641.2NP_001182570.1  secretory phospholipase A2 receptor isoform 3 precursor

      See identical proteins and their annotated locations for NP_001182570.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (3) uses an alternate in-frame splice site in the 3' coding region, compared to variant 1. This results in a shorter protein (isoform 3), compared to isoform 1.
      Source sequence(s)
      AC080166, AC093873, BC144631, BP351340, U17033
      UniProtKB/TrEMBL
      B7ZML4
      Conserved Domains (5) summary
      smart00059
      Location:171219
      FN2; Fibronectin type 2 domain
      cd00037
      Location:242356
      CLECT; C-type lectin (CTL)/C-type lectin-like (CTLD) domain
      smart00034
      Location:378502
      CLECT; C-type lectin (CTL) or carbohydrate-recognition domain (CRD)
      smart00458
      Location:43151
      RICIN; Ricin-type beta-trefoil
      cd00161
      Location:39119
      RICIN; Ricin-type beta-trefoil; Carbohydrate-binding domain formed from presumed gene triplication. The domain is found in a variety of molecules serving diverse functions such as enzymatic activity, inhibitory toxicity and signal transduction. Highly specific ...
    3. NM_007366.5NP_031392.3  secretory phospholipase A2 receptor isoform 1 precursor

      See identical proteins and their annotated locations for NP_031392.3

      Status: REVIEWED

      Description
      Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (1).
      Source sequence(s)
      AC080166, AC093873, BC140823, BP351340, U17033
      Consensus CDS
      CCDS33309.1
      UniProtKB/Swiss-Prot
      B2RTU9, D3DPB1, Q13018, Q13019, Q15095, Q53R45, Q53RR7
      Related
      ENSP00000283243.7, ENST00000283243.13
      Conserved Domains (5) summary
      smart00059
      Location:171219
      FN2; Fibronectin type 2 domain
      cd00037
      Location:242356
      CLECT; C-type lectin (CTL)/C-type lectin-like (CTLD) domain
      smart00034
      Location:378502
      CLECT; C-type lectin (CTL) or carbohydrate-recognition domain (CRD)
      smart00458
      Location:43151
      RICIN; Ricin-type beta-trefoil
      cd00161
      Location:39119
      RICIN; Ricin-type beta-trefoil; Carbohydrate-binding domain formed from presumed gene triplication. The domain is found in a variety of molecules serving diverse functions such as enzymatic activity, inhibitory toxicity and signal transduction. Highly specific ...

    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_000002.12 Reference GRCh38.p14 Primary Assembly

      Range
      159923933..160062615 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_047443729.1XP_047299685.1  secretory phospholipase A2 receptor isoform X1

      UniProtKB/Swiss-Prot
      B2RTU9, D3DPB1, Q13018, Q13019, Q15095, Q53R45, Q53RR7
    2. XM_047443730.1XP_047299686.1  secretory phospholipase A2 receptor isoform X2

      UniProtKB/TrEMBL
      B7ZML4
    3. XM_011510820.4XP_011509122.1  secretory phospholipase A2 receptor isoform X1

      See identical proteins and their annotated locations for XP_011509122.1

      UniProtKB/Swiss-Prot
      B2RTU9, D3DPB1, Q13018, Q13019, Q15095, Q53R45, Q53RR7
      Conserved Domains (5) summary
      smart00059
      Location:171219
      FN2; Fibronectin type 2 domain
      cd00037
      Location:242356
      CLECT; C-type lectin (CTL)/C-type lectin-like (CTLD) domain
      smart00034
      Location:378502
      CLECT; C-type lectin (CTL) or carbohydrate-recognition domain (CRD)
      smart00458
      Location:43151
      RICIN; Ricin-type beta-trefoil
      cd00161
      Location:39119
      RICIN; Ricin-type beta-trefoil; Carbohydrate-binding domain formed from presumed gene triplication. The domain is found in a variety of molecules serving diverse functions such as enzymatic activity, inhibitory toxicity and signal transduction. Highly specific ...
    4. XM_005246392.5XP_005246449.1  secretory phospholipase A2 receptor isoform X1

      See identical proteins and their annotated locations for XP_005246449.1

      UniProtKB/Swiss-Prot
      B2RTU9, D3DPB1, Q13018, Q13019, Q15095, Q53R45, Q53RR7
      Conserved Domains (5) summary
      smart00059
      Location:171219
      FN2; Fibronectin type 2 domain
      cd00037
      Location:242356
      CLECT; C-type lectin (CTL)/C-type lectin-like (CTLD) domain
      smart00034
      Location:378502
      CLECT; C-type lectin (CTL) or carbohydrate-recognition domain (CRD)
      smart00458
      Location:43151
      RICIN; Ricin-type beta-trefoil
      cd00161
      Location:39119
      RICIN; Ricin-type beta-trefoil; Carbohydrate-binding domain formed from presumed gene triplication. The domain is found in a variety of molecules serving diverse functions such as enzymatic activity, inhibitory toxicity and signal transduction. Highly specific ...
    5. XM_017003598.2XP_016859087.1  secretory phospholipase A2 receptor isoform X1

      UniProtKB/Swiss-Prot
      B2RTU9, D3DPB1, Q13018, Q13019, Q15095, Q53R45, Q53RR7
      Conserved Domains (5) summary
      smart00059
      Location:171219
      FN2; Fibronectin type 2 domain
      cd00037
      Location:242356
      CLECT; C-type lectin (CTL)/C-type lectin-like (CTLD) domain
      smart00034
      Location:378502
      CLECT; C-type lectin (CTL) or carbohydrate-recognition domain (CRD)
      smart00458
      Location:43151
      RICIN; Ricin-type beta-trefoil
      cd00161
      Location:39119
      RICIN; Ricin-type beta-trefoil; Carbohydrate-binding domain formed from presumed gene triplication. The domain is found in a variety of molecules serving diverse functions such as enzymatic activity, inhibitory toxicity and signal transduction. Highly specific ...
    6. XM_017003599.2XP_016859088.1  secretory phospholipase A2 receptor isoform X3

    7. XM_047443731.1XP_047299687.1  secretory phospholipase A2 receptor isoform X4

    8. XM_017003601.3XP_016859090.1  secretory phospholipase A2 receptor isoform X5

    RNA

    1. XR_922892.4 RNA Sequence

    2. XR_007071491.1 RNA Sequence

    3. XR_001738672.3 RNA Sequence

    4. XR_001738671.3 RNA Sequence

    5. XR_007071492.1 RNA Sequence

    6. XR_007071494.1 RNA Sequence

    7. XR_007071493.1 RNA Sequence

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060926.1 Alternate T2T-CHM13v2.0

      Range
      160390236..160520476 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054341041.1XP_054197016.1  secretory phospholipase A2 receptor isoform X3

    2. XM_054341042.1XP_054197017.1  secretory phospholipase A2 receptor isoform X4

    3. XM_054341043.1XP_054197018.1  secretory phospholipase A2 receptor isoform X5