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

Gene ID: 83398, updated on 14-Apr-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 deacetylase activity and sulfotransferase activity. Predicted to be involved in heparan sulfate proteoglycan biosynthetic process, polysaccharide chain biosynthetic process. Predicted to be located in membrane. Predicted to be integral component of 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, Apr 2022]
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
  • 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. 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
  2. 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
  3. 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
  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 (28) 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)
  • Targeted (1)  1 citation
  • Chemically induced (ENU) (1) 
  • Endonuclease-mediated (3) 

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 catalytic activity IEA
Inferred from Electronic Annotation
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 hydrolase activity IEA
Inferred from Electronic Annotation
more info
  
enables sulfotransferase activity IDA
Inferred from Direct Assay
more info
 PubMed 
enables transferase activity IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
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
  
acts_upstream_of_or_within metabolic 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 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

  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

    See identical proteins and their annotated locations for XP_006502433.1

    UniProtKB/Swiss-Prot
    Q6AXE0, Q9D557, Q9EQH7
    UniProtKB/TrEMBL
    E9PZJ4, G3UXE3
    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

    See identical proteins and their annotated locations for XP_006502434.1

    UniProtKB/Swiss-Prot
    Q6AXE0, Q9D557, Q9EQH7
    UniProtKB/TrEMBL
    E9PZJ4, G3UXE3
    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

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