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    GPC5 glypican 5 [ Homo sapiens (human) ]

    Gene ID: 2262, updated on 2-Nov-2024

    Summary

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    Official Symbol
    GPC5provided by HGNC
    Official Full Name
    glypican 5provided by HGNC
    Primary source
    HGNC:HGNC:4453
    See related
    Ensembl:ENSG00000179399 MIM:602446; AllianceGenome:HGNC:4453
    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
    Summary
    Cell surface heparan sulfate proteoglycans are composed of a membrane-associated protein core substituted with a variable number of heparan sulfate chains. Members of the glypican-related integral membrane proteoglycan family (GRIPS) contain a core protein anchored to the cytoplasmic membrane via a glycosyl phosphatidylinositol linkage. These proteins may play a role in the control of cell division and growth regulation. [provided by RefSeq, Jul 2008]
    Expression
    Biased expression in brain (RPKM 1.8), testis (RPKM 1.4) and 7 other tissues See more
    Orthologs
    mouse all
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    Genomic context

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    See GPC5 in Genome Data Viewer
    Location:
    13q31.3
    Exon count:
    14
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 13 NC_000013.11 (91398621..92867237)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 13 NC_060937.1 (90601154..92070908)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 13 NC_000013.10 (92050875..93519490)

    Chromosome 13 - NC_000013.11Genomic Context describing neighboring genes Neighboring gene ATAC-STARR-seq lymphoblastoid active region 7863 Neighboring gene uncharacterized LOC124903189 Neighboring gene Sharpr-MPRA regulatory region 6090 Neighboring gene miR-17-92a-1 cluster host gene Neighboring gene microRNA 92a-1 Neighboring gene RNA, U4atac small nuclear 3, pseudogene Neighboring gene NANOG hESC enhancer GRCh37_chr13:92870965-92871466 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr13:92932846-92933346 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr13:92933347-92933847 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr13:92943271-92943775 Neighboring gene fatty acid binding protein 5 pseudogene 4 Neighboring gene GPC5 antisense RNA 2 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr13:93089056-93089650 Neighboring gene Sharpr-MPRA regulatory region 998 Neighboring gene uncharacterized LOC124903190 Neighboring gene GPC5 intronic transcript 1 Neighboring gene microRNA 548as Neighboring gene uncharacterized LOC105370315 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr13:93404424-93405150 Neighboring gene GPC5 antisense RNA 1 Neighboring gene uncharacterized LOC105370317 Neighboring gene long intergenic non-protein coding RNA 363

    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 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. Overexpression of Glypican 5 (GPC5) Inhibits Prostate Cancer Cell Proliferation and Invasion via Suppressing Sp1-Mediated EMT and Activation of Wnt/β-Catenin Signaling. Sun Y, et al. Oncol Res, 2018 May 7. PMID 28893348, Free PMC Article
    2. GPC5 is a possible target for the 13q31-q32 amplification detected in lymphoma cell lines. Yu W, et al. J Hum Genet, 2003. PMID 12721791
    3. A 4-Mb BAC/PAC contig and complete genomic structure of the GPC5/GPC6 gene cluster on chromosome 13q32. Veugelers M, et al. Matrix Biol, 2001 Sep. PMID 11566272
    4. Genetic variants and risk of lung cancer in never smokers: a genome-wide association study. Li Y, et al. Lancet Oncol, 2010 Apr. PMID 20304703, Free PMC Article
    5. Prognostic significance of GPC5 expression in patients with prostate cancer. Zhang C, et al. Tumour Biol, 2016 May. PMID 26631038

    See all (68) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. GPC5 suppresses lung cancer progression and metastasis via intracellular CTDSP1/AhR/ARNT signaling axis and extracellular exosome secretion.
      Title: GPC5 suppresses lung cancer progression and metastasis via intracellular CTDSP1/AhR/ARNT signaling axis and extracellular exosome secretion.
    2. Glypican-1, -3, -5 (GPC1, GPC3, GPC5) and Hedgehog Pathway Expression in Oral Squamous Cell Carcinoma.
      Title: Glypican-1, -3, -5 (GPC1, GPC3, GPC5) and Hedgehog Pathway Expression in Oral Squamous Cell Carcinoma.
    3. Subcellular localization of glypican-5 is associated with dynamic motility of the human mesenchymal stem cell line U3DT.
      Title: Subcellular localization of glypican-5 is associated with dynamic motility of the human mesenchymal stem cell line U3DT.
    4. miR-301b represses the proliferation and invasion of glioma cells by up-regulating GPC5 expression
      Title: MicroRNA-301b promotes the proliferation and invasion of glioma cells through enhancing activation of Wnt/β-catenin signaling via targeting Glypican-5.
    5. Hotair promoted Gastric Cancer development by promoting GCP5 expression via sponging miR-217.
      Title: Long non-coding RNA Hotair promotes gastric cancer progression via miR-217-GPC5 axis.
    6. Our results showed that GPC5 was lowly expressed in PCa cell lines.
      Title: Overexpression of Glypican 5 (GPC5) Inhibits Prostate Cancer Cell Proliferation and Invasion via Suppressing Sp1-Mediated EMT and Activation of Wnt/β-Catenin Signaling.
    7. Taken together, our results suggest GPC5 as a tumor suppressor in PDAC and its expression is possibly regulated by miR-4295. Our study indicates that the miR-4295/GPC5 axis may play an important role in the pathogenesis of PADC and has potential applications for the development of PDAC therapy.
      Title: High expression of microRNA-4295 contributes to cell proliferation and invasion of pancreatic ductal adenocarcinoma by the down-regulation of Glypican-5.
    8. Suggest that GPC5 is able to suppress the lung adenocarcinoma metastasis by competitively binding to Wnt3a and inactivating the Wnt/beta-catenin signaling pathway.
      Title: Glypican-5 suppresses Epithelial-Mesenchymal Transition of the lung adenocarcinoma by competitively binding to Wnt3a.
    9. GPC5 is a novel epigenetically silenced tumor suppressor, which inhibits tumor growth by suppressing Wnt/beta-catenin signaling in lung adenocarcinoma.
      Title: GPC5, a novel epigenetically silenced tumor suppressor, inhibits tumor growth by suppressing Wnt/β-catenin signaling in lung adenocarcinoma.
    10. GPC5 protein expression showed a close correlation with the tumorigenesis and tumor progression of prostate cancer, and that might be applied as a novel biomarker for the prediction of diagnosis and prognosis of prostate cancer.
      Title: Prognostic significance of GPC5 expression in patients with prostate cancer.
    Submit: New GeneRIF Correction See all GeneRIFs (38)

    Phenotypes

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    Review eQTL and phenotype association data in this region using PheGenI

    Copy number response

    Description
    Copy number response
    Haploinsufficency

    No evidence available (Last evaluated 2012-03-08)

    ClinGen Genome Curation Page
    Triplosensitivity

    No evidence available (Last evaluated 2012-03-08)

    ClinGen Genome Curation Page

    EBI GWAS Catalog

    Description
    A genome-wide association study in 19 633 Japanese subjects identified LHX3-QSOX2 and IGF1 as adult height loci.
    EBI GWAS Catalog
    Common variation in GPC5 is associated with acquired nephrotic syndrome.
    EBI GWAS Catalog
    Gene-Smoking Interactions Identify Several Novel Blood Pressure Loci in the Framingham Heart Study.
    EBI GWAS Catalog
    Genetic variants and risk of lung cancer in never smokers: a genome-wide association study.
    EBI GWAS Catalog
    Genetics meets metabolomics: a genome-wide association study of metabolite profiles in human serum.
    EBI GWAS Catalog
    Genome-wide association analysis of susceptibility and clinical phenotype in multiple sclerosis.
    EBI GWAS Catalog
    Genome-wide association study identifies loci on 12q24 and 13q32 associated with tetralogy of Fallot.
    EBI GWAS Catalog
    Genome-wide association study of chemotherapeutic agent-induced severe neutropenia/leucopenia for patients in Biobank Japan.
    EBI GWAS Catalog
    Host determinants of HIV-1 control in African Americans.
    EBI GWAS Catalog
    Hundreds of variants clustered in genomic loci and biological pathways affect human height.
    EBI GWAS Catalog
    Meta-analysis of genome-wide association studies of adult height in East Asians identifies 17 novel loci.
    EBI GWAS Catalog
    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

    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 protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in cell migration IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in positive regulation of canonical Wnt signaling pathway IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in regulation of protein localization to membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    located_in Golgi lumen TAS
    Traceable Author Statement
    more info
    		  
    is_active_in cell surface IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in collagen-containing extracellular matrix IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in extracellular region TAS
    Traceable Author Statement
    more info
    		  
    located_in lysosomal lumen TAS
    Traceable Author Statement
    more info
    		  
    located_in membrane TAS
    Traceable Author Statement
    more info
    		 PubMed 
    located_in plasma membrane TAS
    Traceable Author Statement
    more info
    		  
    located_in side of membrane IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    glypican-5
    Names
    bA93M14.1
    glypican proteoglycan 5

    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_009370.2 RefSeqGene

      Range
      4941..1473557
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_004466.6 → NP_004457.1  glypican-5 precursor

      See identical proteins and their annotated locations for NP_004457.1

      Status: REVIEWED

      Source sequence(s)
      BC039730, DB100549, HY017486
      Consensus CDS
      CCDS9468.1
      UniProtKB/Swiss-Prot
      B2R726, O60436, P78333, Q9BX27
      Related
      ENSP00000366267.3, ENST00000377067.9
      Conserved Domains (1) summary
      pfam01153
      Location:12 → 569
      Glypican; Glypican

    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_000013.11 Reference GRCh38.p14 Primary Assembly

      Range
      91398621..92867237
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_017020435.3 → XP_016875924.1  glypican-5 isoform X1

    2. XM_011521054.4 → XP_011519356.1  glypican-5 isoform X2

      Conserved Domains (1) summary
      pfam01153
      Location:12 → 467
      Glypican; Glypican

    3. XM_017020437.2 → XP_016875926.1  glypican-5 isoform X3

      Conserved Domains (1) summary
      pfam01153
      Location:12 → 423
      Glypican; Glypican

    4. XM_011521059.3 → XP_011519361.1  glypican-5 isoform X3

      See identical proteins and their annotated locations for XP_011519361.1

      Conserved Domains (1) summary
      pfam01153
      Location:12 → 423
      Glypican; Glypican

    5. XM_011521058.3 → XP_011519360.1  glypican-5 isoform X3

      See identical proteins and their annotated locations for XP_011519360.1

      Conserved Domains (1) summary
      pfam01153
      Location:12 → 423
      Glypican; Glypican

    6. XM_011521060.3 → XP_011519362.1  glypican-5 isoform X4

      Conserved Domains (1) summary
      pfam01153
      Location:12 → 423
      Glypican; Glypican

    7. XM_017020436.3 → XP_016875925.1  glypican-5 isoform X3

      Conserved Domains (1) summary
      pfam01153
      Location:12 → 423
      Glypican; Glypican

    8. XM_011521055.4 → XP_011519357.1  glypican-5 isoform X3

      See identical proteins and their annotated locations for XP_011519357.1

      Conserved Domains (1) summary
      pfam01153
      Location:12 → 423
      Glypican; Glypican

    9. XM_011521056.4 → XP_011519358.1  glypican-5 isoform X3

      See identical proteins and their annotated locations for XP_011519358.1

      Conserved Domains (1) summary
      pfam01153
      Location:12 → 423
      Glypican; Glypican

    10. XM_011521057.4 → XP_011519359.1  glypican-5 isoform X3

      See identical proteins and their annotated locations for XP_011519359.1

      Conserved Domains (1) summary
      pfam01153
      Location:12 → 423
      Glypican; Glypican

    11. XM_047430153.1 → XP_047286109.1  glypican-5 isoform X5

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060937.1 Alternate T2T-CHM13v2.0

      Range
      90601154..92070908
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054374222.1 → XP_054230197.1  glypican-5 isoform X1

    2. XM_054374223.1 → XP_054230198.1  glypican-5 isoform X2

    3. XM_054374228.1 → XP_054230203.1  glypican-5 isoform X3

    4. XM_054374229.1 → XP_054230204.1  glypican-5 isoform X3

    5. XM_054374227.1 → XP_054230202.1  glypican-5 isoform X3

    6. XM_054374230.1 → XP_054230205.1  glypican-5 isoform X4

    7. XM_054374224.1 → XP_054230199.1  glypican-5 isoform X3

    8. XM_054374225.1 → XP_054230200.1  glypican-5 isoform X3

    9. XM_054374226.1 → XP_054230201.1  glypican-5 isoform X3

    10. XM_054374231.1 → XP_054230206.1  glypican-5 isoform X5

    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    P78333.1 GenPept UniProtKB/Swiss-Prot:P78333

    Gene LinkOut

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

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