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

Gene ID: 146664, updated on 17-Jun-2019

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
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
The MGAT5B gene encodes a beta-1,6-N-acetylglucosaminyltransferase (EC 2.4.1.155) that functions in the synthesis of complex cell surface N-glycans (Kaneko et al., 2003 [PubMed 14623122]).[supplied by OMIM, Nov 2008]
Expression
Biased expression in brain (RPKM 5.4) and testis (RPKM 0.7) See more
Orthologs

Genomic context

See MGAT5B in Genome Data Viewer
Location:
17q25.2
Exon count:
22
Annotation release Status Assembly Chr Location
109.20190607 current GRCh38.p13 (GCF_000001405.39) 17 NC_000017.11 (76868404..76950393)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 17 NC_000017.10 (74864798..74946472)

Chromosome 17 - NC_000017.11Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC107985089 Neighboring gene long intergenic non-protein coding RNA 868 Neighboring gene uncharacterized LOC105371899 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 FunctionsWhat's a GeneRIF?

Phenotypes

NHGRI GWAS Catalog

Description
A meta-analysis of genome-wide association studies of the electrocardiographic early repolarization pattern.
NHGRI GWA 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.
NHGRI GWA Catalog
The genetic aetiology of cannabis use initiation: a meta-analysis of genome-wide association studies and a SNP-based heritability estimation.
NHGRI GWA 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 BioSystems

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • FLJ25132, KIAA2008

Gene Ontology Provided by GOA

Process Evidence Code Pubs
protein N-linked glycosylation IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
protein O-linked glycosylation via serine IDA
Inferred from Direct Assay
more info
PubMed 
Component Evidence Code Pubs
Golgi apparatus IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
Golgi membrane IEA
Inferred from Electronic Annotation
more info
 
integral component of 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_011522652.1
XP_011522654.1
XP_011522656.1
XP_016879689.1

NCBI Reference Sequences (RefSeq)

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
    Related
    ENSP00000456037.2, ENST00000569840.6
    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: Homo sapiens Annotation Release 109

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000017.11 Reference GRCh38.p13 Primary Assembly

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

mRNA and Protein(s)

  1. XM_011524354.3XP_011522656.1  alpha-1,6-mannosylglycoprotein 6-beta-N-acetylglucosaminyltransferase B isoform X5

    Conserved Domains (1) summary
    pfam15024
    Location:184342
    Glyco_transf_18; Glycosyltransferase family 18
  2. XM_017024200.1XP_016879689.1  alpha-1,6-mannosylglycoprotein 6-beta-N-acetylglucosaminyltransferase B isoform X3

  3. XM_006721707.3XP_006721770.1  alpha-1,6-mannosylglycoprotein 6-beta-N-acetylglucosaminyltransferase B isoform X2

    Conserved Domains (1) summary
    pfam15024
    Location:121714
    Glyco_transf_18; Glycosyltransferase family 18
  4. XM_011524352.2XP_011522654.1  alpha-1,6-mannosylglycoprotein 6-beta-N-acetylglucosaminyltransferase B isoform X4

    Conserved Domains (1) summary
    pfam15024
    Location:184616
    Glyco_transf_18; Glycosyltransferase family 18
  5. XM_011524350.3XP_011522652.1  alpha-1,6-mannosylglycoprotein 6-beta-N-acetylglucosaminyltransferase B isoform X1

    See identical proteins and their annotated locations for XP_011522652.1

    Conserved Domains (1) summary
    pfam15024
    Location:147740
    Glyco_transf_18; Glycosyltransferase family 18

RNA

  1. XR_934377.3 RNA Sequence

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