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    Galnt9 polypeptide N-acetylgalactosaminyltransferase 9 [ Mus musculus (house mouse) ]

    Gene ID: 231605, updated on 2-Nov-2024

    Summary

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    Official Symbol
    Galnt9provided by MGI
    Official Full Name
    polypeptide N-acetylgalactosaminyltransferase 9provided by MGI
    Primary source
    MGI:MGI:2677965
    See related
    Ensembl:ENSMUSG00000033316 AllianceGenome:MGI:2677965
    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
    GalNAc-T9
    Summary
    Predicted to enable polypeptide N-acetylgalactosaminyltransferase activity. Predicted to be involved in protein O-linked glycosylation. Predicted to be active in Golgi apparatus. Is expressed in several structures, including exocrine system; integumental system; limb interdigital region mesenchyme; nervous system; and sensory organ. Orthologous to human GALNT9 (polypeptide N-acetylgalactosaminyltransferase 9). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in cerebellum adult (RPKM 21.5), cortex adult (RPKM 19.3) and 6 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Galnt9 in Genome Data Viewer
    Location:
    5 F; 5 53.66 cM
    Exon count:
    12
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 5 NC_000071.7 (110692217..110769244)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 5 NC_000071.6 (110544032..110621383)

    Chromosome 5 - NC_000071.7Genomic Context describing neighboring genes Neighboring gene predicted gene, 32996 Neighboring gene RIKEN cDNA A630023P12 gene Neighboring gene STARR-seq mESC enhancer starr_13961 Neighboring gene NOC4 like Neighboring gene DEAD box helicase 51

    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. DeCoN: genome-wide analysis of in vivo transcriptional dynamics during pyramidal neuron fate selection in neocortex. Molyneaux BJ, et al. Neuron, 2015 Jan 21. PMID 25556833, Free PMC Article
    2. Loss of the disease-associated glycosyltransferase Galnt3 alters Muc10 glycosylation and the composition of the oral microbiome. Peluso G, et al. J Biol Chem, 2020 Jan 31. PMID 31882545, Free PMC Article
    3. Cell-Type-Specific Gene Expression in Developing Mouse Neocortex: Intermediate Progenitors Implicated in Axon Development. Bedogni F, et al. Front Mol Neurosci, 2021. PMID 34321999, Free PMC Article
    4. GenePaint.org: an atlas of gene expression patterns in the mouse embryo. Visel A, et al. Nucleic Acids Res, 2004 Jan 1. PMID 14681479, Free PMC Article
    5. Genetic determinants of micronucleus formation in vivo. Adams DJ, et al. Nature, 2024 Mar. PMID 38355793, Free PMC Article

    See all (17) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Variation

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    Alleles

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

    General gene information

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    Markers

    Homology

    Clone Names

    • 6430598F23

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables molecular_function ND
    No biological Data available
    more info
    		  
    enables polypeptide N-acetylgalactosaminyltransferase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Process Evidence Code Pubs
    involved_in biological_process ND
    No biological Data available
    more info
    		  
    involved_in protein O-linked glycosylation IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    is_active_in Golgi apparatus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    polypeptide N-acetylgalactosaminyltransferase 9
    Names
    UDP-N-acetyl-alpha-D-galactosamine:polypeptide N-acetylgalactosaminyltransferase 9
    NP_001116111.1
    NP_938048.2

    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_001122639.3 → NP_001116111.1  polypeptide N-acetylgalactosaminyltransferase 9 isoform B

      See identical proteins and their annotated locations for NP_001116111.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (B) lacks several exons, contains an alternate 5' terminal exon and initiates translation at a downstream start codon, compared to variant A. It encodes isoform B, which is shorter at the N-terminus, compared to isoform A.
      Source sequence(s)
      AC161231, AC161348
      Consensus CDS
      CCDS51611.1
      UniProtKB/TrEMBL
      Q3TB05
      Related
      ENSMUSP00000133111.2, ENSMUST00000165856.3
      Conserved Domains (3) summary
      cd00161
      Location:100 → 228
      RICIN; Ricin-type beta-trefoil; Carbohydrate-binding domain formed from presumed gene triplication. The domain is found in a variety of molecules serving diverse functions such as enzymatic activity, inhibitory toxicity and signal transduction. Highly specific ...
      pfam00652
      Location:98 → 226
      Ricin_B_lectin; Ricin-type beta-trefoil lectin domain
      cl11394
      Location:1 → 87
      Glyco_tranf_GTA_type; Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold

    2. NM_198306.4 → NP_938048.2  polypeptide N-acetylgalactosaminyltransferase 9 isoform A

      See identical proteins and their annotated locations for NP_938048.2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (A) represents the longest transcript and encodes the longer isoform (A).
      Source sequence(s)
      AC161231, AC161348
      Consensus CDS
      CCDS51610.1
      UniProtKB/TrEMBL
      G3X942
      Related
      ENSMUSP00000038633.8, ENSMUST00000040001.14
      Conserved Domains (3) summary
      cd02510
      Location:155 → 454
      pp-GalNAc-T; pp-GalNAc-T initiates the formation of mucin-type O-linked glycans
      cd00161
      Location:467 → 595
      RICIN; Ricin-type beta-trefoil; Carbohydrate-binding domain formed from presumed gene triplication. The domain is found in a variety of molecules serving diverse functions such as enzymatic activity, inhibitory toxicity and signal transduction. Highly specific ...
      pfam00652
      Location:465 → 593
      Ricin_B_lectin; Ricin-type beta-trefoil lectin domain

    RNA

    1. NR_104449.2 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (C) lacks several exons, contains an alternate 5' terminal exon and uses an alternate splice site in a 3' exon, compared to variant A. This variant is represented as non-coding because the use of the 5'-most expected translational start codon, as used in variant B, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
      Source sequence(s)
      AC161231, AC161348
      Related
      ENSMUST00000200404.5

    2. NR_185192.1 RNA Sequence

      Status: VALIDATED

      Source sequence(s)
      AC161231, AC161348

    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_000071.7 Reference GRCm39 C57BL/6J

      Range
      110692217..110769244
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein Strain
    Heading Accession and Version

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