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    ndst1b N-deacetylase/N-sulfotransferase (heparan glucosaminyl) 1b [ Danio rerio (zebrafish) ]

    Gene ID: 570459, updated on 25-Apr-2024

    Summary

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    Official Symbol
    ndst1bprovided by ZNC
    Official Full Name
    N-deacetylase/N-sulfotransferase (heparan glucosaminyl) 1bprovided by ZNC
    Primary source
    ZFIN:ZDB-GENE-030131-8022
    See related
    Ensembl:ENSDARG00000103606 AllianceGenome:ZFIN:ZDB-GENE-030131-8022
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Danio rerio
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
    Also known as
    ndst1; fj47c03; wu:fj47c03
    Summary
    Enables [heparan sulfate]-glucosamine N-sulfotransferase activity. Acts upstream of or within sulfation and vasculogenesis. Predicted to be located in Golgi membrane. Predicted to be integral component of membrane. Predicted to be active in Golgi apparatus. Is expressed in several structures, including hindbrain; intermediate cell mass of mesoderm; myotome; pectoral fin; and somite. Human ortholog(s) of this gene implicated in autosomal recessive non-syndromic intellectual disability. Orthologous to human NDST1 (N-deacetylase and N-sulfotransferase 1). [provided by Alliance of Genome Resources, Apr 2022]
    Orthologs
    human mouse all
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    Genomic context

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    See ndst1b in Genome Data Viewer
    Location:
    chromosome: 21
    Exon count:
    18
    Annotation release Status Assembly Chr Location
    106 current GRCz11 (GCF_000002035.6) 21 NC_007132.7 (33249478..33447558)
    105 previous assembly GRCz10 (GCF_000002035.5) 21 NC_007132.6 (33216311..33411296)

    Chromosome 21 - NC_007132.7Genomic Context describing neighboring genes Neighboring gene myozenin-2 Neighboring gene RNA binding motif protein 22 Neighboring gene ribosomal protein S14 Neighboring gene CD74 molecule, major histocompatibility complex, class II invariant chain b

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
    • Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
    • BioProject: PRJEB1986
    • Analysis date: Fri Dec 8 19:48:10 2017

    Bibliography

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    Related articles in PubMed

    1. Glycome and transcriptome regulation of vasculogenesis. Harfouche R, et al. Circulation, 2009 Nov 10. PMID 19858418, Free PMC Article
    2. The NDST gene family in zebrafish: role of NDST1B in pharyngeal arch formation. Filipek-Górniok B, et al. PLoS One, 2015. PMID 25767878, Free PMC Article
    3. Deletion of SREBF1, a Functional Bone-Muscle Pleiotropic Gene, Alters Bone Density and Lipid Signaling in Zebrafish. Shochat C, et al. Endocrinology, 2021 Jan 1. PMID 33068391, Free PMC Article
    4. Evolution of the miR199-214 cluster and vertebrate skeletal development. Desvignes T, et al. RNA Biol, 2014. PMID 24643020, Free PMC Article
    5. An evolutionary approach to recover genes predominantly expressed in the testes of the zebrafish, chicken and mouse. Fouchécourt S, et al. BMC Evol Biol, 2019 Jul 3. PMID 31269894, Free PMC Article

    See all (7) citations in PubMed

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by ZFIN

    Function Evidence Code Pubs
    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 IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables deacetylase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables hydrolase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables sulfotransferase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in heparan sulfate proteoglycan biosynthetic process, polysaccharide chain biosynthetic process IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in heparin biosynthetic process IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within sulfation IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within vasculogenesis IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    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 1; bifunctional heparan sulfate N-deacetylase/N-sulfotransferase 1b
    Names
    N-deacetylase/N-sulfotransferase (heparan glucosaminyl) 1
    NP_001311384.1
    XP_009293866.1
    XP_017208307.1

    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_001324455.1 → NP_001311384.1  bifunctional heparan sulfate N-deacetylase/N-sulfotransferase 1b

      Status: VALIDATED

      Source sequence(s)
      BX072577, LO018008
      UniProtKB/TrEMBL
      A0A0R4IP80, A0A0R4IR84, A0A8M1P7R8
      Related
      ENSDARP00000137017.1, ENSDART00000169972.3
      Conserved Domains (2) summary
      pfam00685
      Location:609 → 859
      Sulfotransfer_1; Sulfotransferase domain
      pfam12062
      Location:28 → 519
      HSNSD; heparan sulfate-N-deacetylase

    RefSeqs of Annotated Genomes: Danio rerio Annotation Release 106 details...Open this link in a new tab

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

    Reference GRCz11 Primary Assembly

    Genomic

    1. NC_007132.7 Reference GRCz11 Primary Assembly

      Range
      33249478..33447558
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_017352818.1 → XP_017208307.1  bifunctional heparan sulfate N-deacetylase/N-sulfotransferase 1 isoform X1

      UniProtKB/TrEMBL
      A0A0R4IP80, A0A0R4IR84, A0A8M1P7R8
      Conserved Domains (2) summary
      pfam00685
      Location:609 → 859
      Sulfotransfer_1; Sulfotransferase domain
      pfam12062
      Location:28 → 519
      HSNSD; heparan sulfate-N-deacetylase

    2. XM_009295591.3 → XP_009293866.1  bifunctional heparan sulfate N-deacetylase/N-sulfotransferase 1 isoform X1

      UniProtKB/TrEMBL
      A0A0R4IP80, A0A0R4IR84, A0A8M1P7R8
      Conserved Domains (2) summary
      pfam00685
      Location:609 → 859
      Sulfotransfer_1; Sulfotransferase domain
      pfam12062
      Location:28 → 519
      HSNSD; heparan sulfate-N-deacetylase
    Nucleotide Protein Strain
    Heading Accession and Version

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