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    GALNT10 polypeptide N-acetylgalactosaminyltransferase 10 [ Homo sapiens (human) ]

    Gene ID: 55568, updated on 28-Oct-2024

    Summary

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    Official Symbol
    GALNT10provided by HGNC
    Official Full Name
    polypeptide N-acetylgalactosaminyltransferase 10provided by HGNC
    Primary source
    HGNC:HGNC:19873
    See related
    Ensembl:ENSG00000164574 MIM:608043; AllianceGenome:HGNC:19873
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    GALNACT10; PPGALNACT10; PPGANTASE10
    Summary
    This gene encodes a member of the GalNAc polypeptide N-acetylgalactosaminyltransferases. These enzymes catalyze the first step in the synthesis of mucin-type oligosaccharides. These proteins transfer GalNAc from UDP-GalNAc to either serine or threonine residues of polypeptide acceptors. The protein encoded by this locus may have increased catalytic activity toward glycosylated peptides compared to activity toward non-glycosylated peptides.[provided by RefSeq, Apr 2010]
    Expression
    Ubiquitous expression in ovary (RPKM 33.6), gall bladder (RPKM 12.6) and 23 other tissues See more
    Orthologs
    mouse all
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    Genomic context

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    See GALNT10 in Genome Data Viewer
    Location:
    5q33.2
    Exon count:
    12
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 5 NC_000005.10 (154190733..154420984)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 5 NC_060929.1 (154723701..154954912)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 5 NC_000005.9 (153570293..153800544)

    Chromosome 5 - NC_000005.10Genomic Context describing neighboring genes Neighboring gene ATAC-STARR-seq lymphoblastoid active region 23471 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 23472 Neighboring gene microfibril associated protein 3 Neighboring gene NANOG hESC enhancer GRCh37_chr5:153465203-153465708 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr5:153486570-153487566 Neighboring gene Sharpr-MPRA regulatory region 747 Neighboring gene uncharacterized LOC124901118 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr5:153568703-153569668 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 16536 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 16537 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 16535 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 16534 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 16533 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:153582451-153582951 Neighboring gene uncharacterized LOC107986465 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr5:153598352-153598858 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr5:153598859-153599363 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 23474 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 16538 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 23475 Neighboring gene Sharpr-MPRA regulatory region 6269 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 16539 Neighboring gene heterogeneous nuclear ribonucleoprotein A3 pseudogene 7 Neighboring gene RNA, 7SL, cytoplasmic 655, pseudogene Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr5:153749600-153750258 Neighboring gene microRNA 1294 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 23476 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:153775267-153775987 Neighboring gene SAP30L antisense RNA 1 (head to head) Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 16540 Neighboring gene H3K27ac hESC enhancer GRCh37_chr5:153789944-153790444 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 23477 Neighboring gene H3K27ac hESC enhancer GRCh37_chr5:153825354-153825854 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 16542 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:153851993-153852964 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:153852965-153853936 Neighboring gene ReSE screen-validated silencer GRCh37_chr5:153855265-153855452 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr5:153855607-153856461 Neighboring gene SAP30 like Neighboring gene heart and neural crest derivatives expressed 1

    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. Elevated Expression of N-Acetylgalactosaminyltransferase 10 Predicts Poor Survival and Early Recurrence of Patients with Clear-Cell Renal Cell Carcinoma. Wu Q, et al. Ann Surg Oncol, 2015 Jul. PMID 25391266
    2. Elevated GALNT10 expression identifies immunosuppressive microenvironment and dismal prognosis of patients with high grade serous ovarian cancer. Zhang G, et al. Cancer Immunol Immunother, 2020 Feb. PMID 31853576, Free PMC Article
    3. Prognostic role of N-Acetylgalactosaminyltransferase 10 in metastatic renal cell carcinoma. Liu L, et al. Oncotarget, 2017 Feb 28. PMID 28122358, Free PMC Article
    4. GALNT10 promotes the proliferation and metastatic ability of gastric cancer and reduces 5-fluorouracil sensitivity by activating HOXD13. Xu G, et al. Eur Rev Med Pharmacol Sci, 2020 Nov. PMID 33275228
    5. Genetic variants in LEKR1 and GALNT10 modulate sex-difference in carotid intima-media thickness: a genome-wide interaction study. Dong C, et al. Atherosclerosis, 2015 Jun. PMID 25898001, Free PMC Article

    See all (32) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. The long noncoding RNA DLGAP1-AS2 facilitates cholangiocarcinoma progression via miR-505 and GALNT10.
      Title: The long noncoding RNA DLGAP1-AS2 facilitates cholangiocarcinoma progression via miR-505 and GALNT10.
    2. BAG3 epigenetically regulates GALNT10 expression via WDR5 and facilitates the stem cell-like properties of platin-resistant ovarian cancer cells.
      Title: BAG3 epigenetically regulates GALNT10 expression via WDR5 and facilitates the stem cell-like properties of platin-resistant ovarian cancer cells.
    3. GALNT10 promotes the proliferation and metastatic ability of gastric cancer and reduces 5-fluorouracil sensitivity by activating HOXD13.
      Title: GALNT10 promotes the proliferation and metastatic ability of gastric cancer and reduces 5-fluorouracil sensitivity by activating HOXD13.
    4. high GALNT10 expression confers with immunosuppressive microenvironment to promote tumor progression and predicts poor clinical outcomes in HGSC patients.
      Title: Elevated GALNT10 expression identifies immunosuppressive microenvironment and dismal prognosis of patients with high grade serous ovarian cancer.
    5. identified that GALNT10 was an independent prognostic factor for overall survival
      Title: Prognostic role of N-Acetylgalactosaminyltransferase 10 in metastatic renal cell carcinoma.
    6. Elevated Expression of N-Acetylgalactosaminyltransferase 10 is associated with early Recurrence of Patients with Clear-Cell Renal Cell Carcinoma.
      Title: Elevated Expression of N-Acetylgalactosaminyltransferase 10 Predicts Poor Survival and Early Recurrence of Patients with Clear-Cell Renal Cell Carcinoma.
    7. SNPs in LEKR1 and GALNT10 modulate sex-difference in carotid intima-media thickness.
      Title: Genetic variants in LEKR1 and GALNT10 modulate sex-difference in carotid intima-media thickness: a genome-wide interaction study.
    8. our results reveal a novel Hnf4alpha/miR-122/GALNT10 regulatory pathway that facilitates EGF miR-122 activation and hepatoma growth in HBV-associated hepatocarcinogenesis.
      Title: Decreased expression of hepatocyte nuclear factor 4α (Hnf4α)/microRNA-122 (miR-122) axis in hepatitis B virus-associated hepatocellular carcinoma enhances potential oncogenic GALNT10 protein activity.
    9. Clinical trial of gene-disease association and gene-environment interaction. (HuGE Navigator)
      Title: Personalized smoking cessation: interactions between nicotine dose, dependence and quit-success genotype score.
    10. GalNAc T10 has a large and pronounced glycopeptide preference for Ser/Thr-O-GalNAc only at the +1 position from the acceptor site, whereas T1 and T2 have significantly reduced and variable preferences for Ser/Thr-O-GalNAc.
      Title: Glycopeptide-preferring polypeptide GalNAc transferase 10 (ppGalNAc T10), involved in mucin-type O-glycosylation, has a unique GalNAc-O-Ser/Thr-binding site in its catalytic domain not found in ppGalNAc T1 or T2.
    Submit: New GeneRIF Correction See all GeneRIFs (12)

    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

    EBI GWAS Catalog

    Description
    A genome-wide association study of behavioral disinhibition.
    EBI GWAS Catalog
    A meta-analysis identifies new loci associated with body mass index in individuals of African ancestry.
    EBI GWAS Catalog
    Biological insights from 108 schizophrenia-associated genetic loci.
    EBI GWAS Catalog
    Genome-wide association of BMI in African Americans.
    EBI GWAS Catalog
    Parent-of-origin-specific allelic associations among 106 genomic loci for age at menarche.
    EBI GWAS Catalog

    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

    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

    Potential readthrough

    Included gene: MFAP3

    Homology

    Clone Names

    • FLJ00205, FLJ11715, DKFZp586H0623

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables carbohydrate binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables polypeptide N-acetylgalactosaminyltransferase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables polypeptide N-acetylgalactosaminyltransferase activity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables polypeptide N-acetylgalactosaminyltransferase activity TAS
    Traceable Author Statement
    more info
    		  
    Process Evidence Code Pubs
    involved_in O-glycan processing IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in O-glycan processing TAS
    Traceable Author Statement
    more info
    		  
    involved_in protein O-linked glycosylation IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in protein O-linked glycosylation IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    Component Evidence Code Pubs
    is_active_in Golgi apparatus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in Golgi membrane TAS
    Traceable Author Statement
    more info
    		  

    General protein information

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    Preferred Names
    polypeptide N-acetylgalactosaminyltransferase 10
    Names
    GalNAc transferase 10
    UDP-GalNAc:polypeptide N-acetylgalactosaminyltransferase 10
    UDP-N-acetyl-alpha-D-galactosamine:polypeptide N-acetylgalactosaminyltransferase 10 (GalNAc-T10)
    NP_938080.1

    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_198321.4 → NP_938080.1  polypeptide N-acetylgalactosaminyltransferase 10

      See identical proteins and their annotated locations for NP_938080.1

      Status: REVIEWED

      Source sequence(s)
      AC008625, AC010295, AJ505950, BC050333, BQ549377
      Consensus CDS
      CCDS4325.1
      UniProtKB/Swiss-Prot
      B3KXC9, Q6IN56, Q86SR1, Q86VP8, Q8IXJ2, Q8TEJ2, Q96IV2, Q9H8E1, Q9Y4M4
      Related
      ENSP00000297107.6, ENST00000297107.11
      Conserved Domains (4) summary
      cd02510
      Location:148 → 443
      pp-GalNAc-T; pp-GalNAc-T initiates the formation of mucin-type O-linked glycans
      COG1216
      Location:145 → 449
      GT2; Glycosyltransferase, GT2 family [Carbohydrate transport and metabolism]
      cd00161
      Location:461 → 589
      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:459 → 587
      Ricin_B_lectin; Ricin-type beta-trefoil lectin domain

    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_000005.10 Reference GRCh38.p14 Primary Assembly

      Range
      154190733..154420984
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060929.1 Alternate T2T-CHM13v2.0

      Range
      154723701..154954912
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NM_017540.3: Suppressed sequence

      Description
      NM_017540.3: This RefSeq was permanently suppressed because currently there is insufficient support for the transcript and the protein.

    2. NM_024564.1: Suppressed sequence

      Description
      NM_024564.1: This RefSeq was permanently suppressed because currently there is insufficient support for the transcript and the protein.
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q86SR1.2 GenPept UniProtKB/Swiss-Prot:Q86SR1

    Gene LinkOut

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

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