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    CHPF chondroitin polymerizing factor [ Homo sapiens (human) ]

    Gene ID: 79586, updated on 3-Nov-2024

    Summary

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    Official Symbol
    CHPFprovided by HGNC
    Official Full Name
    chondroitin polymerizing factorprovided by HGNC
    Primary source
    HGNC:HGNC:24291
    See related
    Ensembl:ENSG00000123989 MIM:610405; AllianceGenome:HGNC:24291
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    CSS2; CHPF1; CHSY2
    Summary
    Enables N-acetylgalactosaminyl-proteoglycan 3-beta-glucuronosyltransferase activity and glucuronosyl-N-acetylgalactosaminyl-proteoglycan 4-beta-N-acetylgalactosaminyltransferase activity. Involved in chondroitin sulfate biosynthetic process. Predicted to be located in Golgi membrane. Predicted to be active in Golgi apparatus. [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Broad expression in testis (RPKM 33.7), placenta (RPKM 25.6) and 24 other tissues See more
    Orthologs
    mouse all
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    Genomic context

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    See CHPF in Genome Data Viewer
    Location:
    2q35
    Exon count:
    5
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 2 NC_000002.12 (219538954..219543809, complement)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 2 NC_060926.1 (220023653..220028508, complement)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 2 NC_000002.11 (220403676..220408531, complement)

    Chromosome 2 - NC_000002.12Genomic Context describing neighboring genes Neighboring gene ASIC4 antisense RNA 1 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 17153 Neighboring gene GDP-mannose pyrophosphorylase A Neighboring gene ATAC-STARR-seq lymphoblastoid active region 17154 Neighboring gene GATA motif-containing MPRA enhancer 279/280 Neighboring gene Sharpr-MPRA regulatory region 4906 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr2:220377201-220377842 Neighboring gene ReSE screen-validated silencer GRCh37_chr2:220379127-220379302 Neighboring gene acid sensing ion channel subunit family member 4 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:220387632-220388132 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:220388133-220388633 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:220396965-220397562 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:220402386-220402940 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:220402941-220403496 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 12358 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 12359 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 12360 Neighboring gene transmembrane protein 198 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 12361 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:220417356-220417856 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:220417857-220418357 Neighboring gene microRNA 3132 Neighboring gene obscurin like cytoskeletal adaptor 1 Neighboring gene ReSE screen-validated silencer GRCh37_chr2:220422411-220422601 Neighboring gene Sharpr-MPRA regulatory region 8831 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr2:220425347-220426210 Neighboring gene OCT4-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr2:220429659-220430520 Neighboring gene OCT4-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr2:220430521-220431382 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr2:220431383-220432244 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr2:220434367-220435204 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr2:220435205-220436042 Neighboring gene Sharpr-MPRA regulatory region 8639 Neighboring gene inhibin subunit alpha

    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. Chondroitin polymerizing factor promotes breast carcinoma cell proliferation, invasion and migration and affects expression of epithelial-mesenchymal transition-related markers. Li Y, et al. FEBS Open Bio, 2021 Feb. PMID 33301643, Free PMC Article
    2. Identification of chondroitin polymerizing factor (CHPF) as tumor promotor in cholangiocarcinoma through regulating cell proliferation, cell apoptosis and cell migration. Duan X, et al. Cell Cycle, 2021 Mar-Mar. PMID 33651657, Free PMC Article
    3. Chondroitin polymerizing factor (CHPF) contributes to malignant proliferation and migration of hepatocellular carcinoma cells. Xu Q, et al. Biochem Cell Biol, 2020 Jun. PMID 32383983
    4. CHPF promotes lung adenocarcinoma proliferation and anti-apoptosis via the MAPK pathway. Hou XM, et al. Pathol Res Pract, 2019 May. PMID 30826152
    5. Lentivirus‑mediated knockdown of chondroitin polymerizing factor inhibits glioma cell growth in vitro. Fan YH, et al. Oncol Rep, 2017 Aug. PMID 28627702

    See all (58) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Chondroitin polymerizing factor promotes development and progression of colorectal cancer via facilitating transcription of VEGFB.
      Title: Chondroitin polymerizing factor promotes development and progression of colorectal cancer via facilitating transcription of VEGFB.
    2. MiR-214-3p overexpression-triggered chondroitin polymerizing factor (CHPF) inhibition modulates the ferroptosis and metabolism in colon cancer.
      Title: MiR-214-3p overexpression-triggered chondroitin polymerizing factor (CHPF) inhibition modulates the ferroptosis and metabolism in colon cancer.
    3. Activation of CHPF by transcription factor NFIC promotes NLRP3 activation during the progression of colorectal cancer.
      Title: Activation of CHPF by transcription factor NFIC promotes NLRP3 activation during the progression of colorectal cancer.
    4. The HNF4A-CHPF pathway promotes proliferation and invasion through interactions with MAD1L1 in glioma.
      Title: The HNF4A-CHPF pathway promotes proliferation and invasion through interactions with MAD1L1 in glioma.
    5. Extracellular vesicles derived from hypoxic HTR-8/SVneo trophoblast inhibit endothelial cell functions through the miR-150-3p /CHPF pathway.
      Title: Extracellular vesicles derived from hypoxic HTR-8/SVneo trophoblast inhibit endothelial cell functions through the miR-150-3p /CHPF pathway.
    6. CHPF promotes gastric cancer tumorigenesis through the activation of E2F1.
      Title: CHPF promotes gastric cancer tumorigenesis through the activation of E2F1.
    7. Identification of chondroitin polymerizing factor (CHPF) as tumor promotor in cholangiocarcinoma through regulating cell proliferation, cell apoptosis and cell migration.
      Title: Identification of chondroitin polymerizing factor (CHPF) as tumor promotor in cholangiocarcinoma through regulating cell proliferation, cell apoptosis and cell migration.
    8. Chondroitin polymerizing factor promotes breast carcinoma cell proliferation, invasion and migration and affects expression of epithelial-mesenchymal transition-related markers.
      Title: Chondroitin polymerizing factor promotes breast carcinoma cell proliferation, invasion and migration and affects expression of epithelial-mesenchymal transition-related markers.
    9. Chondroitin polymerizing factor (CHPF) promotes development of malignant melanoma through regulation of CDK1.
      Title: Chondroitin polymerizing factor (CHPF) promotes development of malignant melanoma through regulation of CDK1.
    10. Chondroitin polymerizing factor (CHPF) contributes to malignant proliferation and migration of hepatocellular carcinoma cells.
      Title: Chondroitin polymerizing factor (CHPF) contributes to malignant proliferation and migration of hepatocellular carcinoma cells.
    Submit: New GeneRIF Correction See all GeneRIFs (18)

    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

    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

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Clone Names

    • FLJ22678

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables N-acetylgalactosaminyl-proteoglycan 3-beta-glucuronosyltransferase activity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables N-acetylgalactosaminyl-proteoglycan 3-beta-glucuronosyltransferase activity TAS
    Traceable Author Statement
    more info
    		  
    enables glucuronosyl-N-acetylgalactosaminyl-proteoglycan 4-beta-N-acetylgalactosaminyltransferase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables glucuronosyl-N-acetylgalactosaminyl-proteoglycan 4-beta-N-acetylgalactosaminyltransferase activity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables glucuronosyl-N-acetylgalactosaminyl-proteoglycan 4-beta-N-acetylgalactosaminyltransferase activity TAS
    Traceable Author Statement
    more info
    		  
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in chondroitin sulfate biosynthetic process IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in chondroitin sulfate biosynthetic process IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in chondroitin sulfate biosynthetic process TAS
    Traceable Author Statement
    more info
    		  
    Component Evidence Code Pubs
    located_in Golgi cisterna membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in Golgi membrane TAS
    Traceable Author Statement
    more info
    		  
    located_in cytosol IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in mitochondrial matrix IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    chondroitin sulfate synthase 2
    Names
    N-acetylgalactosaminyl-proteoglycan 3-beta-glucuronosyltransferase II
    N-acetylgalactosaminyltransferase 2
    chondroitin glucuronyltransferase 2
    glucuronosyl-N-acetylgalactosaminyl-proteoglycan 4-beta-N-acetylgalactosaminyltransferase II
    NP_001182660.2
    NP_078812.3
    XP_011510140.1
    XP_054199868.1

    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_001195731.2 → NP_001182660.2  chondroitin sulfate synthase 2 isoform 2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) contains an alternate 5' terminal exon compared to variant 1, resulting in translation initiation from an in-frame downstream AUG, and an isoform (2) with a shorter N-terminus compared to isoform 1.
      Source sequence(s)
      AC009955
      Consensus CDS
      CCDS56169.1
      Related
      ENSP00000445571.1, ENST00000535926.3
      Conserved Domains (2) summary
      pfam05679
      Location:100 → 600
      CHGN; Chondroitin N-acetylgalactosaminyltransferase
      cl21608
      Location:32 → 142
      Galactosyl_T; Galactosyltransferase

    2. NM_024536.6 → NP_078812.3  chondroitin sulfate synthase 2 isoform 1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) encodes the longer isoform (1).
      Source sequence(s)
      AC009955
      Consensus CDS
      CCDS2443.1
      UniProtKB/Swiss-Prot
      B4DXU0, Q6UXD6, Q7L4G1, Q8IZ52, Q9H0F8, Q9H618
      UniProtKB/TrEMBL
      A0A8I5QJC8
      Related
      ENSP00000243776.6, ENST00000243776.11
      Conserved Domains (2) summary
      pfam05679
      Location:262 → 762
      CHGN; Chondroitin N-acetylgalactosaminyltransferase
      cl21608
      Location:194 → 304
      Galactosyl_T; Galactosyltransferase

    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_000002.12 Reference GRCh38.p14 Primary Assembly

      Range
      219538954..219543809 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_011511838.4 → XP_011510140.1  chondroitin sulfate synthase 2 isoform X1

      Conserved Domains (1) summary
      pfam05679
      Location:3 → 471
      CHGN; Chondroitin N-acetylgalactosaminyltransferase

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060926.1 Alternate T2T-CHM13v2.0

      Range
      220023653..220028508 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054343893.1 → XP_054199868.1  chondroitin sulfate synthase 2 isoform X1

    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q8IZ52.2 GenPept UniProtKB/Swiss-Prot:Q8IZ52

    Gene LinkOut

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

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