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    MGAT5B alpha-1,6-mannosylglycoprotein 6-beta-N-acetylglucosaminyltransferase B [ Homo sapiens (human) ]

    Gene ID: 146664, updated on 9-Dec-2024

    Summary

    Official Symbol
    MGAT5Bprovided by HGNC
    Official Full Name
    alpha-1,6-mannosylglycoprotein 6-beta-N-acetylglucosaminyltransferase Bprovided by HGNC
    Primary source
    HGNC:HGNC:24140
    See related
    Ensembl:ENSG00000167889 MIM:612441; AllianceGenome:HGNC:24140
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    GnT-IX; GnT-VB
    Summary
    Enables alpha-1,6-mannosylglycoprotein 6-beta-N-acetylglucosaminyltransferase activity and manganese ion binding activity. Involved in protein O-linked glycosylation via serine. Predicted to be located in Golgi membrane. Predicted to be active in Golgi apparatus. [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in brain (RPKM 5.4) and testis (RPKM 0.7) See more
    Orthologs
    NEW
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    Genomic context

    See MGAT5B in Genome Data Viewer
    Location:
    17q25.2
    Exon count:
    20
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 17 NC_000017.11 (76868404..76950393)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 17 NC_060941.1 (77760422..77843205)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 17 NC_000017.10 (74864486..74946475)

    Chromosome 17 - NC_000017.11Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC107985089 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:74822016-74822832 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:74834234-74834958 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12815 Neighboring gene ReSE screen-validated silencer GRCh37_chr17:74835690-74835885 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12816 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12817 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:74837373-74837889 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:74840421-74841249 Neighboring gene Sharpr-MPRA regulatory region 12785 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 9029 Neighboring gene long intergenic non-protein coding RNA 868 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:74881066-74881940 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:74901567-74902178 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:74902179-74902790 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:74912167-74912666 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:74933764-74934306 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:74936614-74937172 Neighboring gene uncharacterized LOC105371899 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:74953917-74954830 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 9030 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:74965460-74966084 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:74978799-74979337 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:74979338-74979875 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:74991281-74991822 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:74993993-74994533 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12819 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:75048917-75049660 Neighboring gene ReSE screen-validated silencer GRCh37_chr17:75052409-75052622 Neighboring gene Sharpr-MPRA regulatory region 11385 Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr17:75084131-75085330 Neighboring gene small Cajal body-specific RNA 16 Neighboring gene SEC14 like lipid binding 1 Neighboring gene microRNA 6516 Neighboring gene small nucleolar RNA host gene 20

    Genomic regions, transcripts, and products

    Expression

    • Project title: 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

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Phenotypes

    EBI GWAS Catalog

    Description
    A meta-analysis of genome-wide association studies of the electrocardiographic early repolarization pattern.
    EBI GWAS Catalog
    Genome-wide study of percent emphysema on computed tomography in the general population. The Multi-Ethnic Study of Atherosclerosis Lung/SNP Health Association Resource Study.
    EBI GWAS Catalog
    The genetic aetiology of cannabis use initiation: a meta-analysis of genome-wide association studies and a SNP-based heritability estimation.
    EBI GWAS Catalog

    HIV-1 interactions

    Protein interactions

    Protein Gene Interaction Pubs
    Envelope surface glycoprotein gp160, precursor env Oligosaccharide side-chains of HIV-1 gp160 are processed by glycosidase I and II, mannosidase I and II, acetylglucosaminyl transferase I and II, and fucosyl, galactosyl and sialyl transferases in both the endoplasmic reticulum and golgi apparatus PubMed
    Envelope transmembrane glycoprotein gp41 env Mannose-containing, N-linked oligosaccharide side-chains of HIV-1 gp41 are involved in the initial stage of infection by HIV-1; glycosylation inhibitors block virus-cell and cell-cell fusion and release of the virions PubMed

    Go to the HIV-1, Human Interaction Database

    Pathways from PubChem

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Clone Names

    • FLJ25132, KIAA2008

    Gene Ontology Provided by GOA

    Process Evidence Code Pubs
    involved_in protein N-linked glycosylation IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in protein O-linked glycosylation via serine 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 IEA
    Inferred from Electronic Annotation
    more info
     

    General protein information

    Preferred Names
    alpha-1,6-mannosylglycoprotein 6-beta-N-acetylglucosaminyltransferase B
    Names
    N-acetylglucosaminyl-transferase Vb
    N-acetylglucosaminyltransferase IX
    alpha-mannoside beta-1,6-N-acetylglucosaminyltransferase B
    beta(1,6)-N-acetylglucosaminyltransferase V
    glcNAc-T Vb
    hGnTVb
    mannoside acetylglucosaminyltransferase 5B
    mannosyl (alpha-1,6-)-glycoprotein beta-1,6-N-acetyl-glucosaminyltransferase, isoenzyme B
    mannosyl (alpha-1,6-)-glycoprotein beta-1,6-N-acetyl-glucosaminyltransferase, isozyme B
    NP_001186101.1
    NP_653278.2
    NP_945193.1
    XP_006721770.1
    XP_011522654.1
    XP_011522656.1
    XP_047291339.1
    XP_054171076.1
    XP_054171077.1
    XP_054171078.1
    XP_054171079.1
    XP_054171080.1

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    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_001199172.2NP_001186101.1  alpha-1,6-mannosylglycoprotein 6-beta-N-acetylglucosaminyltransferase B isoform 3

      See identical proteins and their annotated locations for NP_001186101.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) differs in the 5' UTR and coding sequence and contains an alternate in-frame exon compared to variant 2. The resulting isoform (3) has a shorter and distinct N-terminus and lacks an internal 2 aa segment compared to isoform 2.
      Source sequence(s)
      AB235153, AC016168, AW191036, BC063862
      Consensus CDS
      CCDS59299.1
      UniProtKB/Swiss-Prot
      Q3V5L5, Q6P3S8, Q6P6B3, Q766X5, Q76D04, Q96LS2
      Related
      ENSP00000456037.2, ENST00000569840.7
      Conserved Domains (1) summary
      pfam15024
      Location:184777
      Glyco_transf_18; Glycosyltransferase family 18
    2. NM_144677.3NP_653278.2  alpha-1,6-mannosylglycoprotein 6-beta-N-acetylglucosaminyltransferase B isoform 1

      See identical proteins and their annotated locations for NP_653278.2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) differs in the 5' UTR and coding sequence compared to variant 2. The resulting isoform (1) has a shorter and distinct N-terminus compared to isoform 2.
      Source sequence(s)
      AB109185, AB114297, AC016168, AW191036, BC036948, BC041577
      Consensus CDS
      CCDS11751.1
      UniProtKB/Swiss-Prot
      Q3V5L5
      Related
      ENSP00000301618.4, ENST00000301618.8
      Conserved Domains (1) summary
      pfam15024
      Location:184775
      Glyco_transf_18; Glycosyltransferase family 18
    3. NM_198955.1NP_945193.1  alpha-1,6-mannosylglycoprotein 6-beta-N-acetylglucosaminyltransferase B isoform 2

      See identical proteins and their annotated locations for NP_945193.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) encodes the longest isoform (2).
      Source sequence(s)
      AB109185, AB114297, AW191036, BC036948
      Consensus CDS
      CCDS45788.1
      UniProtKB/Swiss-Prot
      Q3V5L5
      Related
      ENSP00000391227.2, ENST00000428789.6
      Conserved Domains (1) summary
      pfam15024
      Location:195786
      Glyco_transf_18; Glycosyltransferase family 18

    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_000017.11 Reference GRCh38.p14 Primary Assembly

      Range
      76868404..76950393
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006721707.4XP_006721770.1  alpha-1,6-mannosylglycoprotein 6-beta-N-acetylglucosaminyltransferase B isoform X1

      Conserved Domains (1) summary
      pfam15024
      Location:121714
      Glyco_transf_18; Glycosyltransferase family 18
    2. XM_011524352.3XP_011522654.1  alpha-1,6-mannosylglycoprotein 6-beta-N-acetylglucosaminyltransferase B isoform X2

      Conserved Domains (1) summary
      pfam15024
      Location:184616
      Glyco_transf_18; Glycosyltransferase family 18
    3. XM_047435383.1XP_047291339.1  alpha-1,6-mannosylglycoprotein 6-beta-N-acetylglucosaminyltransferase B isoform X3

      UniProtKB/TrEMBL
      H3BQ65
      Related
      ENSP00000455631.1, ENST00000565043.5
    4. XM_011524354.4XP_011522656.1  alpha-1,6-mannosylglycoprotein 6-beta-N-acetylglucosaminyltransferase B isoform X4

      Conserved Domains (1) summary
      pfam15024
      Location:184342
      Glyco_transf_18; Glycosyltransferase family 18

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060941.1 Alternate T2T-CHM13v2.0

      Range
      77760422..77843205
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054315102.1XP_054171077.1  alpha-1,6-mannosylglycoprotein 6-beta-N-acetylglucosaminyltransferase B isoform X1

    2. XM_054315103.1XP_054171078.1  alpha-1,6-mannosylglycoprotein 6-beta-N-acetylglucosaminyltransferase B isoform X2

    3. XM_054315104.1XP_054171079.1  alpha-1,6-mannosylglycoprotein 6-beta-N-acetylglucosaminyltransferase B isoform X3

      UniProtKB/TrEMBL
      H3BQ65
    4. XM_054315105.1XP_054171080.1  alpha-1,6-mannosylglycoprotein 6-beta-N-acetylglucosaminyltransferase B isoform X4

    5. XM_054315101.1XP_054171076.1  alpha-1,6-mannosylglycoprotein 6-beta-N-acetylglucosaminyltransferase B isoform X5