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St6galnac6 ST6 (alpha-N-acetyl-neuraminyl-2,3-beta-galactosyl-1,3)-N-acetylgalactosaminide alpha-2,6-sialyltransferase 6 [ Mus musculus (house mouse) ]

Gene ID: 50935, updated on 27-Nov-2024

Summary

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Official Symbol
St6galnac6provided by MGI
Official Full Name
ST6 (alpha-N-acetyl-neuraminyl-2,3-beta-galactosyl-1,3)-N-acetylgalactosaminide alpha-2,6-sialyltransferase 6provided by MGI
Primary source
MGI:MGI:1355316
See related
Ensembl:ENSMUSG00000026811 AllianceGenome:MGI:1355316
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
Siat7f; ST6GalNAcVI
Summary
Enables alpha-N-acetylgalactosaminide alpha-2,6-sialyltransferase activity. Involved in oligosaccharide biosynthetic process. Acts upstream of or within ganglioside biosynthetic process. Located in cytoplasm. Is expressed in alimentary system; axial muscle; brain; craniocervical region bone; and exocrine system. Orthologous to human ST6GALNAC6 (ST6 N-acetylgalactosaminide alpha-2,6-sialyltransferase 6). [provided by Alliance of Genome Resources, Nov 2024]
Expression
Biased expression in colon adult (RPKM 299.0), adrenal adult (RPKM 26.2) and 6 other tissues See more
Orthologs
human all
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Genomic context

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See St6galnac6 in Genome Data Viewer
Location:
2 B; 2 22.09 cM
Exon count:
8
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 2 NC_000068.8 (32489721..32510821)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 2 NC_000068.7 (32599709..32620809)

Chromosome 2 - NC_000068.8Genomic Context describing neighboring genes Neighboring gene RIKEN cDNA 9430097D07 gene Neighboring gene phosphatidylinositol-4-phosphate 5-kinase-like 1 Neighboring gene STARR-positive B cell enhancer ABC_E10095 Neighboring gene ST6 (alpha-N-acetyl-neuraminyl-2,3-beta-galactosyl-1,3)-N-acetylgalactosaminide alpha-2,6-sialyltransferase 4 Neighboring gene predicted gene, 52551 Neighboring gene predicted gene, 23369 Neighboring gene STARR-positive B cell enhancer ABC_E10096 Neighboring gene STARR-seq mESC enhancer starr_04202 Neighboring gene adenylate kinase 1 Neighboring gene STARR-seq mESC enhancer starr_04203 Neighboring gene microRNA 1954 Neighboring gene endoglin

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. Comparative analysis of the genomic structures and promoter activities of mouse Siaalpha2,3Galbeta1,3GalNAc GalNAcalpha2, 6-sialyltransferase genes (ST6GalNAc III and IV): characterization of their Sp1 binding sites. Takashima S, et al. J Biochem, 2000 Mar. PMID 10731711
  2. Sialylation shapes mucus architecture inhibiting bacterial invasion in the colon. Taniguchi M, et al. Mucosal Immunol, 2023 Oct. PMID 37385587
  3. Molecular cloning and expression of mouse GD1alpha/GT1aalpha/GQ1balpha synthase (ST6GalNAc VI) gene. Okajima T, et al. J Biol Chem, 2000 Mar 10. PMID 10702226
  4. Synthesis of disialyl Lewis a (Le(a)) structure in colon cancer cell lines by a sialyltransferase, ST6GalNAc VI, responsible for the synthesis of alpha-series gangliosides. Tsuchida A, et al. J Biol Chem, 2003 Jun 20. PMID 12668675
  5. Developmental changes of glycosphingolipids and expression of glycogenes in mouse brains. Ngamukote S, et al. J Neurochem, 2007 Dec. PMID 17883393

See all (21) 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)

Pathways from PubChem

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General gene information

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Markers

Homology

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables alpha-N-acetylgalactosaminide alpha-2,6-sialyltransferase activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables alpha-N-acetylgalactosaminide alpha-2,6-sialyltransferase activity IDA
Inferred from Direct Assay
more info
 PubMed 
enables sialyltransferase activity IDA
Inferred from Direct Assay
more info
 PubMed 
enables sialyltransferase activity ISO
Inferred from Sequence Orthology
more info
  
Process Evidence Code Pubs
involved_in cell-cell recognition IC
Inferred by Curator
more info
 PubMed 
involved_in ganglioside biosynthetic process IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within ganglioside biosynthetic process IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in glycoprotein metabolic process ISO
Inferred from Sequence Orthology
more info
  
involved_in glycosphingolipid metabolic process ISO
Inferred from Sequence Orthology
more info
  
involved_in glycosylceramide metabolic process IEA
Inferred from Electronic Annotation
more info
  
involved_in glycosylceramide metabolic process ISO
Inferred from Sequence Orthology
more info
  
involved_in oligosaccharide biosynthetic process IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in oligosaccharide metabolic process IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in protein glycosylation IEA
Inferred from Electronic Annotation
more info
  
Component Evidence Code Pubs
located_in Golgi membrane IEA
Inferred from Electronic Annotation
more info
  
located_in cytoplasm IDA
Inferred from Direct Assay
more info
 PubMed 

General protein information

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Preferred Names
alpha-N-acetylgalactosaminide alpha-2,6-sialyltransferase 6
Names
(alpha-N-acetyl-neuraminyl-2,3-beta-galactosyl-1, 3)-N-acetylgalactosaminide alpha-2,6-sialyltransferase 6
galNAc alpha-2,6-sialyltransferase VI
sialytransferase 7 ((alpha-N-acetylneuraminyl 2,3-betagalactosyl-1,3)-N-acetyl galactosaminide alpha-2,6-sialytransferase) F
NP_001020481.1
NP_001020482.1
NP_001276476.1
NP_001276477.1
NP_001276478.1
NP_058669.1

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_001025310.2 → NP_001020481.1  alpha-N-acetylgalactosaminide alpha-2,6-sialyltransferase 6 isoform 2 precursor

    See identical proteins and their annotated locations for NP_001020481.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) differs in the 5' UTR and 5' coding region, initiates translation at a downstream start codon and uses an alternate splice splice site in the 3' terminal exon, compared to variant 4. This results in a frameshift and an early stop codon, compared to variant 4. Variants 2 and 6 encode the same isoform (2), which is shorter and has a distinct C-terminus, compared to isoform 4.
    Source sequence(s)
    AB035123, AK030648, AK159158, BY072844
    Consensus CDS
    CCDS38105.1
    UniProtKB/TrEMBL
    E9PU98, E9PUI0
    Related
    ENSMUSP00000108915.2, ENSMUST00000113290.8
    Conserved Domains (1) summary
    pfam00777
    Location:68 → 289
    Glyco_transf_29; Glycosyltransferase family 29 (sialyltransferase)

  2. NM_001025311.2 → NP_001020482.1  alpha-N-acetylgalactosaminide alpha-2,6-sialyltransferase 6 isoform 3

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) contains an alternate 5' exon structure and uses an alternate splice site in the 3' coding region, resulting in a frameshift and an early stop codon, compared to variant 4. It encodes isoform 3, which is shorter and has distinct N- and C-termini, compared to isoform 4.
    Source sequence(s)
    AB035123, AK030648, AK159158, BY720739
    Consensus CDS
    CCDS15922.1
    UniProtKB/TrEMBL
    Z4YLR0
    Related
    ENSMUSP00000115430.3, ENSMUST00000131229.8
    Conserved Domains (1) summary
    pfam00777
    Location:82 → 303
    Glyco_transf_29; Glycosyltransferase family 29 (sialyltransferase)

  3. NM_001289547.1 → NP_001276476.1  alpha-N-acetylgalactosaminide alpha-2,6-sialyltransferase 6 isoform 4

    Status: VALIDATED

    Description
    Transcript Variant: This variant (4) encodes the longest isoform (4).
    Source sequence(s)
    AB035123, AK030648, AK159158, BY072844
    UniProtKB/Swiss-Prot
    Q9JM95
    Conserved Domains (1) summary
    pfam00777
    Location:102 → 266
    Glyco_transf_29; Glycosyltransferase family 29 (sialyltransferase)

  4. NM_001289548.1 → NP_001276477.1  alpha-N-acetylgalactosaminide alpha-2,6-sialyltransferase 6 isoform 5 precursor

    Status: VALIDATED

    Description
    Transcript Variant: This variant (5) differs in the 5' UTR, lacks a portion of the 5' coding region and initiates translation at a downstream start codon, compared to variant 4. It encodes isoform 5, which has a shorter N-terminus, compared to isoform 4.
    Source sequence(s)
    AB035123, AK030648, AK159158, BY072844
    UniProtKB/Swiss-Prot
    Q9JM95
    Conserved Domains (1) summary
    pfam00777
    Location:68 → 232
    Glyco_transf_29; Glycosyltransferase family 29 (sialyltransferase)

  5. NM_001289549.1 → NP_001276478.1  alpha-N-acetylgalactosaminide alpha-2,6-sialyltransferase 6 isoform 2 precursor

    See identical proteins and their annotated locations for NP_001276478.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (6) differs in the 5' UTR and 5' coding region, initiates translation at a downstream start codon and uses an alternate splice splice site in the 3' terminal exon, compared to variant 4. This results in a frameshift and an early stop codon, compared to variant 4. Variants 2 and 6 encode the same isoform (2), which is shorter and has a distinct C-terminus, compared to isoform 4.
    Source sequence(s)
    AB035123, AK030648, AK159158, BY072844, CK617550
    Consensus CDS
    CCDS38105.1
    UniProtKB/TrEMBL
    E9PU98, E9PUI0
    Related
    ENSMUSP00000092655.4, ENSMUST00000095045.9
    Conserved Domains (1) summary
    pfam00777
    Location:68 → 289
    Glyco_transf_29; Glycosyltransferase family 29 (sialyltransferase)

  6. NM_016973.3 → NP_058669.1  alpha-N-acetylgalactosaminide alpha-2,6-sialyltransferase 6 isoform 1

    See identical proteins and their annotated locations for NP_058669.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) uses an alternate splice site in the 3' coding region, compared to variant 4. This results in a frameshift and an early stop codon, compared to variant 4. It encodes isoform 1, which is shorter and has a distinct C-terminus, compared to isoform 4.
    Source sequence(s)
    AB035123, AK030648, AK159158, BY072844
    Consensus CDS
    CCDS15923.1
    UniProtKB/Swiss-Prot
    A2AK72, A2AK76, A2AK77, A2AK78, A2AK79, Q05CN1, Q8CDC3, Q9JM95, Q9R0G9
    Related
    ENSMUSP00000092654.4, ENSMUST00000095044.10
    Conserved Domains (1) summary
    pfam00777
    Location:102 → 323
    Glyco_transf_29; Glycosyltransferase family 29 (sialyltransferase)

RNA

  1. NR_110347.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (7) uses an alternate splice site in an internal exon, compared to variant 4. This variant is represented as non-coding because the use of the 5'-most expected translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
    Source sequence(s)
    AB035123, AK030648, AK159158, BY072844
    Related
    ENSMUST00000183538.8

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_000068.8 Reference GRCm39 C57BL/6J

    Range
    32489721..32510821
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q9JM95.1 GenPept UniProtKB/Swiss-Prot:Q9JM95

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