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    Prg4 proteoglycan 4 (megakaryocyte stimulating factor, articular superficial zone protein) [ Mus musculus (house mouse) ]

    Gene ID: 96875, updated on 5-Jan-2022

    Summary

    Official Symbol
    Prg4provided by MGI
    Official Full Name
    proteoglycan 4 (megakaryocyte stimulating factor, articular superficial zone protein)provided by MGI
    Primary source
    MGI:MGI:1891344
    See related
    Ensembl:ENSMUSG00000006014
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
    Also known as
    MSF; SZP; CACP; JCAP; DOL54; lubricin
    Summary
    Predicted to enable polysaccharide binding activity and scavenger receptor activity. Acts upstream of or within hematopoietic stem cell proliferation; negative regulation of interleukin-6 production; and regulation of cell population proliferation. Located in extracellular space. Is expressed in brain; larynx; musculoskeletal system; and spinal component of peripheral nervous system. Human ortholog(s) of this gene implicated in camptodactyly-arthropathy-coxa vara-pericarditis syndrome and pericarditis. Orthologous to human PRG4 (proteoglycan 4). [provided by Alliance of Genome Resources, Nov 2021]
    Expression
    Broad expression in liver adult (RPKM 3.0), heart adult (RPKM 1.6) and 19 other tissues See more
    Orthologs
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    See Prg4 in Genome Data Viewer
    Location:
    1; 1 G1
    Exon count:
    13
    Annotation release Status Assembly Chr Location
    109 current GRCm39 (GCF_000001635.27) 1 NC_000067.7 (150325163..150341916, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 1 NC_000067.6 (150449412..150466221, complement)
    Build 37.2 previous assembly MGSCv37 (GCF_000001635.18) 1 NC_000067.5 (152296542..152313295, complement)

    Chromosome 1 - NC_000067.7Genomic Context describing neighboring genes Neighboring gene RIKEN cDNA 2310030A07 gene Neighboring gene phosducin Neighboring gene odr4 GPCR localization factor homolog Neighboring gene translocated promoter region, nuclear basket protein Neighboring gene predicted gene, 41967 Neighboring gene spindle and kinetochore associated complex subunit 2-like, pseudogene

    Genomic regions, transcripts, and products

    Expression

    • Project title: Mouse ENCODE transcriptome data
    • Description: RNA profiling data sets generated by the Mouse ENCODE project.
    • BioProject: PRJNA66167
    • Publication: PMID 25409824
    • Analysis date: n/a

    Bibliography

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Variation

    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Targeted (3)  1 citation
    • Endonuclease-mediated (1) 

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Homology

    Clone Names

    • MGC161183

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables polysaccharide binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables scavenger receptor activity IEA
    Inferred from Electronic Annotation
    more info
     
    Component Evidence Code Pubs
    is_active_in collagen-containing extracellular matrix IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    located_in extracellular region IEA
    Inferred from Electronic Annotation
    more info
     
    located_in extracellular space HDA PubMed 
    is_active_in extracellular space IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    located_in extracellular space IDA
    Inferred from Direct Assay
    more info
    PubMed 

    General protein information

    Preferred Names
    proteoglycan 4
    Names
    megakaryocyte-stimulating factor
    proteoglycan 3
    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.

    mRNA and Protein(s)

    1. NM_001110146.1NP_001103616.1  proteoglycan 4 isoform 2 precursor

      See identical proteins and their annotated locations for NP_001103616.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) lacks internal coding exons and segments, as compared to variant 1. The resulting isoform (2) is much shorter but has identical N- and C-termini, compared to isoform 1.
      Source sequence(s)
      AK149469, BE457731
      Consensus CDS
      CCDS48391.1
      UniProtKB/Swiss-Prot
      Q9JM99
      UniProtKB/TrEMBL
      A0A0R4J207
      Related
      ENSMUSP00000125551.2, ENSMUST00000162367.8
      Conserved Domains (2) summary
      smart00201
      Location:2668
      SO; Somatomedin B -like domains
      cd00094
      Location:161422
      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_021400.3NP_067375.3  proteoglycan 4 isoform 1 precursor

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) encodes the longer isoform (1).
      Source sequence(s)
      AC161432
      Consensus CDS
      CCDS48392.1
      UniProtKB/TrEMBL
      E0CZ58
      Related
      ENSMUSP00000125677.2, ENSMUST00000161611.8
      Conserved Domains (4) summary
      PTZ00449
      Location:634938
      PTZ00449; 104 kDa microneme/rhoptry antigen; Provisional
      smart00201
      Location:2668
      SO; Somatomedin B -like domains
      PHA03247
      Location:446761
      PHA03247; large tegument protein UL36; Provisional
      cd00094
      Location:9591220
      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: Mus musculus Annotation Release 109 details...Open this link in a new tab

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCm39 C57BL/6J

    Genomic

    1. NC_000067.7 Reference GRCm39 C57BL/6J

      Range
      150325163..150341916 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_036154551.1XP_036010444.1  proteoglycan 4 isoform X11

      Conserved Domains (4) summary
      PTZ00449
      Location:505809
      PTZ00449; 104 kDa microneme/rhoptry antigen; Provisional
      smart00201
      Location:2565
      SO; Somatomedin B -like domains
      PHA03247
      Location:317632
      PHA03247; large tegument protein UL36; Provisional
      cd00094
      Location:8301091
      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. XM_036154540.1XP_036010433.1  proteoglycan 4 isoform X4

      Conserved Domains (4) summary
      PTZ00449
      Location:593897
      PTZ00449; 104 kDa microneme/rhoptry antigen; Provisional
      smart00201
      Location:2567
      SO; Somatomedin B -like domains
      PHA03247
      Location:405720
      PHA03247; large tegument protein UL36; Provisional
      cd00094
      Location:9181179
      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. XM_036154548.1XP_036010441.1  proteoglycan 4 isoform X8

      Related
      ENSMUSP00000107532.3, ENSMUST00000111901.9
      Conserved Domains (5) summary
      PTZ00449
      Location:546850
      PTZ00449; 104 kDa microneme/rhoptry antigen; Provisional
      smart00201
      Location:2668
      SO; Somatomedin B -like domains
      PHA03247
      Location:358673
      PHA03247; large tegument protein UL36; Provisional
      cd00094
      Location:8711132
      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 ...
      pfam01033
      Location:69106
      Somatomedin_B; Somatomedin B domain
    4. XM_036154543.1XP_036010436.1  proteoglycan 4 isoform X5

      Conserved Domains (4) summary
      smart00201
      Location:2668
      SO; Somatomedin B -like domains
      PHA03247
      Location:402722
      PHA03247; large tegument protein UL36; Provisional
      cd00094
      Location:9121173
      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 ...
      NF033201
      Location:667784
      Vip_LPXTG_Lm; cell invasion LPXTG protein Vip
    5. XM_036154555.1XP_036010448.1  proteoglycan 4 isoform X13

      Conserved Domains (2) summary
      smart00201
      Location:2668
      SO; Somatomedin B -like domains
      cd00094
      Location:672933
      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 ...
    6. XM_036154534.1XP_036010427.1  proteoglycan 4 isoform X2

      Conserved Domains (3) summary
      smart00201
      Location:2668
      SO; Somatomedin B -like domains
      PHA03247
      Location:428795
      PHA03247; large tegument protein UL36; Provisional
      cd00094
      Location:9351196
      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 ...
    7. XM_036154553.1XP_036010446.1  proteoglycan 4 isoform X12

      Related
      ENSMUSP00000107533.3, ENSMUST00000111902.9
      Conserved Domains (4) summary
      smart00201
      Location:2668
      SO; Somatomedin B -like domains
      PHA03247
      Location:452819
      PHA03247; large tegument protein UL36; Provisional
      cd00094
      Location:8231084
      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 ...
      pfam02389
      Location:517633
      Cornifin; Cornifin (SPRR) family
    8. XM_036154547.1XP_036010440.1  proteoglycan 4 isoform X7

      Conserved Domains (4) summary
      smart00201
      Location:2668
      SO; Somatomedin B -like domains
      PHA03247
      Location:452875
      PHA03247; large tegument protein UL36; Provisional
      cd00094
      Location:8791140
      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 ...
      pfam02389
      Location:573689
      Cornifin; Cornifin (SPRR) family
    9. XM_036154549.1XP_036010442.1  proteoglycan 4 isoform X9

      Conserved Domains (4) summary
      smart00201
      Location:2668
      SO; Somatomedin B -like domains
      PHA03247
      Location:403859
      PHA03247; large tegument protein UL36; Provisional
      cd00094
      Location:8631124
      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 ...
      pfam02389
      Location:557673
      Cornifin; Cornifin (SPRR) family
    10. XM_036154550.1XP_036010443.1  proteoglycan 4 isoform X10

      Conserved Domains (4) summary
      smart00201
      Location:2668
      SO; Somatomedin B -like domains
      PHA03247
      Location:452724
      PHA03247; large tegument protein UL36; Provisional
      cd00094
      Location:8551116
      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 ...
      pfam02389
      Location:501617
      Cornifin; Cornifin (SPRR) family
    11. XM_036154546.1XP_036010439.1  proteoglycan 4 isoform X6

      Conserved Domains (3) summary
      smart00201
      Location:2668
      SO; Somatomedin B -like domains
      PHA03247
      Location:452748
      PHA03247; large tegument protein UL36; Provisional
      cd00094
      Location:8791140
      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 ...
    12. XM_036154538.1XP_036010431.1  proteoglycan 4 isoform X3

      Conserved Domains (3) summary
      smart00201
      Location:2668
      SO; Somatomedin B -like domains
      PHA03247
      Location:403779
      PHA03247; large tegument protein UL36; Provisional
      cd00094
      Location:9191180
      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 ...
    13. XM_036154525.1XP_036010418.1  proteoglycan 4 isoform X1

      Related
      ENSMUSP00000128943.2, ENSMUST00000164600.8
      Conserved Domains (4) summary
      PTZ00449
      Location:634938
      PTZ00449; 104 kDa microneme/rhoptry antigen; Provisional
      smart00201
      Location:2668
      SO; Somatomedin B -like domains
      PHA03247
      Location:446761
      PHA03247; large tegument protein UL36; Provisional
      cd00094
      Location:9591220
      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 ...
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