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    Ndst3 N-deacetylase/N-sulfotransferase (heparan glucosaminyl) 3 [ Mus musculus (house mouse) ]

    Gene ID: 83398, updated on 2-Nov-2024

    Summary

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    Official Symbol
    Ndst3provided by MGI
    Official Full Name
    N-deacetylase/N-sulfotransferase (heparan glucosaminyl) 3provided by MGI
    Primary source
    MGI:MGI:1932544
    See related
    Ensembl:ENSMUSG00000027977 AllianceGenome:MGI:1932544
    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
    NDST-3; N-HSST 3; 4921531K01Rik; 4930511P15Rik
    Summary
    Enables N-acetylglucosamine deacetylase activity and [heparan sulfate]-glucosamine N-sulfotransferase activity. Involved in heparan sulfate proteoglycan biosynthetic process. Predicted to be located in Golgi membrane. Predicted to be active in Golgi apparatus. Is expressed in several structures, including future brain; genitourinary system; heart; nervous system; and retina. Orthologous to human NDST3 (N-deacetylase and N-sulfotransferase 3). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in cerebellum adult (RPKM 10.8), CNS E14 (RPKM 4.0) and 6 other tissues See more
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    Genomic context

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    See Ndst3 in Genome Data Viewer
    Location:
    3 G1; 3 54.58 cM
    Exon count:
    18
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 3 NC_000069.7 (123319815..123484822, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 3 NC_000069.6 (123526166..123691174, complement)

    Chromosome 3 - NC_000069.7Genomic Context describing neighboring genes Neighboring gene STARR-positive B cell enhancer mm9_chr3:123219553-123219853 Neighboring gene small nucleolar RNA, H/ACA box 24 Neighboring gene tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, theta polypeptide pseudogene Neighboring gene STARR-seq mESC enhancer starr_08913 Neighboring gene small nucleolar RNA host gene 8 Neighboring gene STARR-seq mESC enhancer starr_08914 Neighboring gene STARR-seq mESC enhancer starr_08915 Neighboring gene predicted gene, 24456 Neighboring gene 60S ribosomal protein L15 pseudogene

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Mouse ENCODE transcriptome data 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

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    Related articles in PubMed

    1. Endothelial heparan sulfate deficiency impairs L-selectin- and chemokine-mediated neutrophil trafficking during inflammatory responses. Wang L, et al. Nat Immunol, 2005 Sep. PMID 16056228
    2. Heparan Sulfate Proteoglycan Sulfation Regulates Uterine Differentiation and Signaling During Embryo Implantation. Yin Y, et al. Endocrinology, 2018 Jun 1. PMID 29688404, Free PMC Article
    3. Lowered expression of heparan sulfate/heparin biosynthesis enzyme N-deacetylase/n-sulfotransferase 1 results in increased sulfation of mast cell heparin. Dagälv A, et al. J Biol Chem, 2011 Dec 30. PMID 22049073, Free PMC Article
    4. Regulated translation of heparan sulfate N-acetylglucosamine N-deacetylase/n-sulfotransferase isozymes by structured 5'-untranslated regions and internal ribosome entry sites. Grobe K, et al. J Biol Chem, 2002 Aug 23. PMID 12070138
    5. Altered heparan sulfate structure in mice with deleted NDST3 gene function. Pallerla SR, et al. J Biol Chem, 2008 Jun 13. PMID 18385133, Free PMC Article

    See all (30) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. An essential role for Heparin sulfate proteoglycan sulfation via NDST1,2,3 in modulating signal transduction during mouse implantation.
      Title: Heparan Sulfate Proteoglycan Sulfation Regulates Uterine Differentiation and Signaling During Embryo Implantation.
    2. NDST3 function is not essential for development or adult homeostasis despite contributing to HS synthesis in a region-specific manner
      Title: Altered heparan sulfate structure in mice with deleted NDST3 gene function.
    Submit: New GeneRIF Correction

    Variation

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    Alleles

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

    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

    Clone Names

    • MGC90637

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables N-acetylglucosamine deacetylase activity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables [heparan sulfate]-glucosamine N-sulfotransferase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables [heparan sulfate]-glucosamine N-sulfotransferase activity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables [heparan sulfate]-glucosamine N-sulfotransferase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables deacetylase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables deacetylase activity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables heparan sulfate N-deacetylase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables sulfotransferase activity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in heparan sulfate proteoglycan biosynthetic process IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in heparan sulfate proteoglycan biosynthetic process IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in heparan sulfate proteoglycan biosynthetic process ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in heparan sulfate proteoglycan biosynthetic process, polysaccharide chain biosynthetic process IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in heparan sulfate proteoglycan biosynthetic process, polysaccharide chain biosynthetic process ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in heparin biosynthetic process IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    is_active_in Golgi apparatus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in Golgi membrane IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    bifunctional heparan sulfate N-deacetylase/N-sulfotransferase 3
    Names
    N-heparan sulfate sulfotransferase 3
    glucosaminyl N-deacetylase/N-sulfotransferase 3
    NP_001280611.1
    NP_112463.2
    XP_006502433.1
    XP_006502434.1
    XP_006502437.1
    XP_006502439.1
    XP_030108783.1
    XP_036019317.1

    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_001293682.1 → NP_001280611.1  bifunctional heparan sulfate N-deacetylase/N-sulfotransferase 3 isoform 2

      See identical proteins and their annotated locations for NP_001280611.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) has a different 5' structure, lacks a portion of the 5' coding region, and initiates translation at a downstream start codon, compared to variant 1. The encoded isoform (2) has a shorter N-terminus compared to isoform 1.
      Source sequence(s)
      AC124005, AK015768, BC079622
      Consensus CDS
      CCDS80013.1
      UniProtKB/TrEMBL
      D3YXE5
      Related
      ENSMUSP00000122617.2, ENSMUST00000124803.8
      Conserved Domains (2) summary
      pfam00685
      Location:180 → 431
      Sulfotransfer_1; Sulfotransferase domain
      pfam12062
      Location:1 → 91
      HSNSD; heparan sulfate-N-deacetylase

    2. NM_001429228.1 → NP_001416157.1  bifunctional heparan sulfate N-deacetylase/N-sulfotransferase 3 isoform 1

      Status: VALIDATED

      Source sequence(s)
      AC124005, AC160531
      UniProtKB/TrEMBL
      E9PZJ4, G3UXE3

    3. NM_031186.4 → NP_112463.2  bifunctional heparan sulfate N-deacetylase/N-sulfotransferase 3 isoform 1

      See identical proteins and their annotated locations for NP_112463.2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) encodes the longer isoform (1).
      Source sequence(s)
      AC124005, AC160531
      Consensus CDS
      CCDS17818.1
      UniProtKB/Swiss-Prot
      Q6AXE0, Q9D557, Q9EQH7
      UniProtKB/TrEMBL
      E9PZJ4, G3UXE3
      Related
      ENSMUSP00000029602.7, ENSMUST00000029602.13
      Conserved Domains (2) summary
      pfam00685
      Location:595 → 846
      Sulfotransfer_1; Sulfotransferase domain
      pfam12062
      Location:21 → 506
      HSNSD; heparan sulfate-N-deacetylase

    RNA

    1. NR_121616.2 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) uses an alternate splice site in an internal exon compared to variant 1. This variant is represented as non-coding because the use of the 5'-most supported translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
      Source sequence(s)
      AC124005, AC160531
      Related
      ENSMUST00000137404.8

    2. NR_190701.1 RNA Sequence

      Status: VALIDATED

      Source sequence(s)
      AC124005, AC160531

    RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

    Reference GRCm39 C57BL/6J

    Genomic

    1. NC_000069.7 Reference GRCm39 C57BL/6J

      Range
      123319815..123484822 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006502370.4 → XP_006502433.1  bifunctional heparan sulfate N-deacetylase/N-sulfotransferase 3 isoform X1

      Related
      ENSMUSP00000118207.2, ENSMUST00000154668.8
      Conserved Domains (2) summary
      pfam00685
      Location:595 → 846
      Sulfotransfer_1; Sulfotransferase domain
      pfam12062
      Location:21 → 506
      HSNSD; heparan sulfate-N-deacetylase

    2. XM_006502371.4 → XP_006502434.1  bifunctional heparan sulfate N-deacetylase/N-sulfotransferase 3 isoform X1

      Related
      ENSMUSP00000133657.3, ENSMUST00000172537.3
      Conserved Domains (2) summary
      pfam00685
      Location:595 → 846
      Sulfotransfer_1; Sulfotransferase domain
      pfam12062
      Location:21 → 506
      HSNSD; heparan sulfate-N-deacetylase

    3. XM_036163424.1 → XP_036019317.1  bifunctional heparan sulfate N-deacetylase/N-sulfotransferase 3 isoform X4

      UniProtKB/TrEMBL
      D3YXE5
      Related
      ENSMUSP00000120623.2, ENSMUST00000132112.8
      Conserved Domains (2) summary
      pfam00685
      Location:180 → 431
      Sulfotransfer_1; Sulfotransferase domain
      pfam12062
      Location:1 → 91
      HSNSD; heparan sulfate-N-deacetylase

    4. XM_006502376.3 → XP_006502439.1  bifunctional heparan sulfate N-deacetylase/N-sulfotransferase 3 isoform X4

      See identical proteins and their annotated locations for XP_006502439.1

      UniProtKB/TrEMBL
      D3YXE5
      Conserved Domains (2) summary
      pfam00685
      Location:180 → 431
      Sulfotransfer_1; Sulfotransferase domain
      pfam12062
      Location:1 → 91
      HSNSD; heparan sulfate-N-deacetylase

    5. XM_030252923.2 → XP_030108783.1  bifunctional heparan sulfate N-deacetylase/N-sulfotransferase 3 isoform X2

      Conserved Domains (1) summary
      pfam12062
      Location:21 → 506
      HSNSD; heparan sulfate-N-deacetylase

    6. XM_006502374.4 → XP_006502437.1  bifunctional heparan sulfate N-deacetylase/N-sulfotransferase 3 isoform X3

      Conserved Domains (1) summary
      pfam12062
      Location:21 → 506
      HSNSD; heparan sulfate-N-deacetylase

    RNA

    1. XR_003954428.1 RNA Sequence

    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9EQH7.2 GenPept UniProtKB/Swiss-Prot:Q9EQH7

    Gene LinkOut

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

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