U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from GEO Profiles

    • Showing Current items.

    PRG4 proteoglycan 4 [ Homo sapiens (human) ]

    Gene ID: 10216, updated on 9-Dec-2024

    Summary

    Official Symbol
    PRG4provided by HGNC
    Official Full Name
    proteoglycan 4provided by HGNC
    Primary source
    HGNC:HGNC:9364
    See related
    Ensembl:ENSG00000116690 MIM:604283; AllianceGenome:HGNC:9364
    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
    MSF; SZP; CACP; HAPO; JCAP
    Summary
    The protein encoded by this gene is a large proteoglycan that is synthesized by chondrocytes located at the surface of articular cartilage and by some synovial lining cells. This protein contains both chondroitin sulfate and keratan sulfate glycosaminoglycans. It functions as a boundary lubricant at the cartilage surface and contributes to the elastic absorption and energy dissipation of synovial fluid. Mutations in this gene result in camptodactyly-arthropathy-coxa vara-pericarditis syndrome. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Dec 2014]
    Expression
    Biased expression in liver (RPKM 61.2), fat (RPKM 6.6) and 1 other tissue See more
    Orthologs
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    See PRG4 in Genome Data Viewer
    Location:
    1q31.1
    Exon count:
    13
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 1 NC_000001.11 (186296273..186314567)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 1 NC_060925.1 (185650929..185669225)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (186265405..186283699)

    Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene hemicentin 1 Neighboring gene uncharacterized LOC105371654 Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr1:186156636-186157835 Neighboring gene MPRA-validated peak514 silencer Neighboring gene uncharacterized LOC124904471 Neighboring gene ReSE screen-validated silencer GRCh37_chr1:186214031-186214197 Neighboring gene RNA, U6 small nuclear 1240, pseudogene Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr1:186312648-186313847 Neighboring gene MPRA-validated peak515 silencer Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr1:186323778-186324977 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 1648 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 2246 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 2247 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 2248 Neighboring gene translocated promoter region, nuclear basket protein Neighboring gene odr-4 GPCR localization factor homolog Neighboring gene PDC antisense RNA 1 Neighboring gene phosducin

    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?

    HIV-1 interactions

    Protein interactions

    Protein Gene Interaction Pubs
    Tat tat HIV-Tat peptide interferes with polyamine uptake via competition for proteoglycan binding sites rather than a putative downstream transporter in human carcinoma cells PubMed

    Go to the HIV-1, Human Interaction Database

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Clone Names

    • FLJ32635, bG174L6.2

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables extracellular matrix structural constituent conferring compression resistance RCA
    inferred from Reviewed Computational Analysis
    more info
    PubMed 
    enables polysaccharide binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables scavenger receptor activity IEA
    Inferred from Electronic Annotation
    more info
     
    Process Evidence Code Pubs
    involved_in immune response IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in vesicle-mediated transport IEA
    Inferred from Electronic Annotation
    more info
     
    Component Evidence Code Pubs
    located_in collagen-containing extracellular matrix HDA PubMed 
    is_active_in collagen-containing extracellular matrix IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    is_active_in extracellular space IBA
    Inferred from Biological aspect of Ancestor
    more info
     

    General protein information

    Preferred Names
    proteoglycan 4
    Names
    articular superficial zone protein
    hemangiopoietin
    lubricin
    megakaryocyte stimulating factor
    superficial zone proteoglycan

    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.

    Genomic

    1. NG_008248.2 RefSeqGene

      Range
      4994..23282
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_001127708.3NP_001121180.2  proteoglycan 4 isoform B preproprotein

      Status: REVIEWED

      Description
      Transcript Variant: This variant (B, also known as V0a) lacks an alternate in-frame exon in the 5' coding region, compared to variant A. The resulting protein (isoform B) is shorter than isoform A.
      Source sequence(s)
      AK131434, AL133553, CA435357, DA977744, KF455089, U70136
      Consensus CDS
      CCDS44288.1
      Related
      ENSP00000356453.4, ENST00000367483.8
      Conserved Domains (4) summary
      smart00201
      Location:2567
      SO; Somatomedin B -like domains
      PHA03247
      Location:333798
      PHA03247; large tegument protein UL36; Provisional
      PRK14950
      Location:258378
      PRK14950; DNA polymerase III subunits gamma and tau; Provisional
      cd00094
      Location:11021362
      HX; Hemopexin-like repeats.; Hemopexin is a heme-binding protein that transports heme to the liver. Hemopexin-like repeats occur in vitronectin and some matrix metalloproteinases family (matrixins). The HX repeats of some matrixins bind tissue inhibitor of ...
    2. NM_001127709.3NP_001121181.2  proteoglycan 4 isoform C preproprotein

      Status: REVIEWED

      Description
      Transcript Variant: This variant (C, also known as V2) lacks two alternate in-frame exons in the 5' coding region, compared to variant A. The resulting protein (isoform C) is shorter than isoform A.
      Source sequence(s)
      AK131434, AL133553, CA435357, DA977744, DC404857, KF455089, U70136
      Consensus CDS
      CCDS44287.1
      Related
      ENSP00000356455.4, ENST00000367485.4
      Conserved Domains (4) summary
      smart00201
      Location:66108
      SO; Somatomedin B -like domains
      PHA03247
      Location:304814
      PHA03247; large tegument protein UL36; Provisional
      PRK12270
      Location:266339
      kgd; multifunctional oxoglutarate decarboxylase/oxoglutarate dehydrogenase thiamine pyrophosphate-binding subunit/dihydrolipoyllysine-residue succinyltransferase subunit
      cd00094
      Location:10501310
      HX; Hemopexin-like repeats.; Hemopexin is a heme-binding protein that transports heme to the liver. Hemopexin-like repeats occur in vitronectin and some matrix metalloproteinases family (matrixins). The HX repeats of some matrixins bind tissue inhibitor of ...
    3. NM_001127710.3NP_001121182.2  proteoglycan 4 isoform D preproprotein

      Status: REVIEWED

      Description
      Transcript Variant: This variant (D, also known as V3) lacks three alternate in-frame exons in the 5' coding region, compared to variant A. The resulting protein (isoform D) is shorter than isoform A.
      Source sequence(s)
      AK131434, AL133553, CA435357, DA977744, DC295855, KF455089, U70136
      Conserved Domains (4) summary
      smart00201
      Location:2567
      SO; Somatomedin B -like domains
      PHA03247
      Location:240705
      PHA03247; large tegument protein UL36; Provisional
      PRK14950
      Location:165285
      PRK14950; DNA polymerase III subunits gamma and tau; Provisional
      cd00094
      Location:10091269
      HX; Hemopexin-like repeats.; Hemopexin is a heme-binding protein that transports heme to the liver. Hemopexin-like repeats occur in vitronectin and some matrix metalloproteinases family (matrixins). The HX repeats of some matrixins bind tissue inhibitor of ...
    4. NM_001303232.2NP_001290161.1  proteoglycan 4 isoform E preproprotein

      Status: REVIEWED

      Description
      Transcript Variant: This variant (E, also known as V1) lacks an alternate in-frame exon in the 5' coding region, compared to variant A. The resulting protein (isoform E) is shorter than isoform A.
      Source sequence(s)
      AL133553, CA435357, DA995681, U70136
      Consensus CDS
      CCDS81411.1
      Related
      ENSP00000489292.1, ENST00000635041.1
      Conserved Domains (3) summary
      smart00201
      Location:66108
      SO; Somatomedin B -like domains
      cd00094
      Location:11001360
      HX; Hemopexin-like repeats.; Hemopexin is a heme-binding protein that transports heme to the liver. Hemopexin-like repeats occur in vitronectin and some matrix metalloproteinases family (matrixins). The HX repeats of some matrixins bind tissue inhibitor of ...
      pfam05086
      Location:336399
      Dicty_REP; Dictyostelium (Slime Mold) REP protein
    5. NM_005807.6NP_005798.3  proteoglycan 4 isoform A preproprotein

      Status: REVIEWED

      Description
      Transcript Variant: This variant (A, also known as V0) represents the longest transcript and encodes the longest isoform (A).
      Source sequence(s)
      AL133553, KF455089
      Consensus CDS
      CCDS1369.1
      UniProtKB/Swiss-Prot
      Q6DNC4, Q6DNC5, Q6ZMZ5, Q92954, Q9BX49
      Related
      ENSP00000399679.3, ENST00000445192.7
      Conserved Domains (4) summary
      PRK13335
      Location:304441
      PRK13335; superantigen-like protein SSL3; Reviewed
      smart00201
      Location:66108
      SO; Somatomedin B -like domains
      PHA03247
      Location:374839
      PHA03247; large tegument protein UL36; Provisional
      cd00094
      Location:11431403
      HX; Hemopexin-like repeats.; Hemopexin is a heme-binding protein that transports heme to the liver. Hemopexin-like repeats occur in vitronectin and some matrix metalloproteinases family (matrixins). The HX repeats of some matrixins bind tissue inhibitor of ...

    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
      186296273..186314567
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060925.1 Alternate T2T-CHM13v2.0

      Range
      185650929..185669225
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)