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B3GNT6 Gene

protein-coding   GIFtS: 47

GC11P076425
UDP-GlcNAc:betaGal beta-1,3-N-acetylglucosaminyltransferase 6 (core 3 synthase)
Symbol approved by the HUGO Gene Nomenclature Committee (HGNC) database
Services    
(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc , and/or 7Ensembl, 8miRBase)
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Aliases
B3Gn-T6 1, 2
BGnT-6 3
Beta-1,3-N-acetylglucosaminyltransferase-6 3
Beta3Gn-T6 3
EC 2.4.1.- 3
IMAGE:4907098 2
MGC119334 2
MGC119336 2
MGC119337 2
Descriptions
Core 3 synthase 3
UDP-GlcNAc:betaGal beta-1,3-N-acetylglucosaminyltransferase
6 2
UDP-GlcNAc:betaGal beta-1,3-N-acetylglucosaminyltransferase
6 (core 3 synthase) 2
beta-1,3-N-acetylglucosaminyltransferase protein 2
External Ids
HGNC: 241411
Entrez Gene: 1921342
UniProtKB: Q6ZMB03
Ensembl: ENSG000001984887
Search outside databases for aliases for B3GNT6 gene

Previous GC identifers: GC11M068646 GC11M067794 GC11M066362 GC11M065889 GC11M065890 GC11M065869

(According to Entrez Gene, Wikipedia's Gene Wiki,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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UniProtKB/Swiss-Prot: B3GN6_HUMAN, Q6ZMB0
Function: Beta-1,3-N-acetylglucosaminyltransferase that synthesizes the core 3 structure of the
O-glycan, an important precursor in the biosynthesis of mucin-type glycoproteins. Plays an
important role in the synthesis of mucin-type O-glycans in digestive organs

(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 36),
and/or miRBase,
Genomic Views according to UCSC and Ensembl, Transcription factor binding sites according to SABiosciences)
About This Section

Genomic View:
UCSC Golden Path with GeneCards custom track

 Transcription factor binding sites upstream to the B3GNT6 gene  

Entrez Gene cytogenetic band: 11q13.4   Ensembl cytogenetic band:  11q13.5   HGNC cytogenetic band: 11q13.4

B3GNT6 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)

GeneLoc gene densities for chromosome 11         GeneLoc Exon Structure

GeneLoc location for GC11P076425:     (about GC identifiers)

Start:
76,423,083 bp from pter
End:
76,430,668 bp from pter
Size:
7,586 bases
Orientation:
plus strand
RefSeq DNA sequence:
NC_000011.8  NT_033927.7  
(According to 1UniProtKB, and/or Ensembl, Phosphorylation sites according to 2Phosphosite, RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from Invitrogen, Millipore, Sigma-Aldrich, R&D Systems, Enzo Life Sciences, Abnova, OriGene and/or, Abcam,
Biochemical Assays by Invitrogen, Millipore, R&D Systems, Cell Signaling Technology, and/or Enzo Life Sciences, Ontologies according to Gene Ontology Consortium 01 Apr 2009 and Entrez Gene, Antibodies by Invitrogen, Millipore, Sigma-Aldrich, R&D Systems, Cell Signaling Technology, Abcam, Abnova, and/or Novus Biologicals)
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UniProtKB/Swiss-Prot: B3GN6_HUMAN, Q6ZMB0 (See protein sequence)
Recommended Name: UDP-GlcNAc:betaGal beta-1,3-N-acetylglucosaminyltransferase 6  
Size: 384 amino acids; 42748 Da
Subcellular location: Golgi apparatus membrane; Single-pass type II membrane protein
Miscellaneous: Injection into nude mice significantly suppress lung metastasis, indicating that the
core structures of O-glycans are profoundly involved in the metastatic capacity of cancer cells
Secondary accessions: Q6ZSC5 Q8TAZ4 Q8TDX1
Alternative splicing: 2 isoforms:  Q6ZMB0-1   Q6ZMB0-2   

REFSEQ proteins: NP_619651.3  

ENSEMBL proteins: 
ENSP00000346256 


Human Recombinant Proteins 
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Browse recombinant and purified proteins available from Enzo Life Sciences
Browse Abcam for Recombinant Proteins
Human Recombinant Proteins from Abnova (B3Gn-T6)
                Browse Origene for full length recombinant human proteins expressed in human HEK293 cells 

4 Gene Ontology (GO) cellular component terms (links to tree view):

GO IDQualified GO termEvidencePubMed IDs
GO:0000139 Golgi membrane IEA--
GO:0005794 Golgi apparatus IEA--
GO:0016020 membrane NAS11821425
GO:0016021 integral to membrane IEA--
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Antibodies for B3GNT6: 
Browse Antibodies Central at Invitrogen
Browse Millipore's Extensive Line of Mono- and Polyclonal Antibodies
Browse Antibodies at Sigma-Aldrich
Browse R&D Systems for Antibodies
Search for antibodies at Abcam and the World's Antibody Gateway (free search engine of over 150 antibody companies)
Monoclonal and Polyclonal Antibodies from Abnova (B3Gn-T6)
Novus Biologicals Antibody for B3GNT6

Assays for B3GNT6: 
Browse Invitrogen for biochemical assays
Browse Kits and Assays available from Millipore
Browse R&D Systems for biochemical assays
Browse biochemical assays available from Enzo Life Sciences

(According to InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
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1 InterPro domain/family:
 IPR002659 Glyco_trans_31


   GeneDecks  B3GNT6 for the domains selected above  
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Graphical View of Domain Structure for InterPro Entry Q6ZMB0

ProtoNet protein and cluster: Q6ZMB0

1 Blocks protein family: IPB002659 Glycosyl transferase

UniProtKB/Swiss-Prot: B3GN6_HUMAN, Q6ZMB0
Similarity: Belongs to the glycosyltransferase 31 family

(According to MGI Jun 06 2009, UniProtKB, IUBMB,and/or Genatlas,
shRNA from OriGene, Sigma-Aldrich, RNAi from Sigma-Aldrich,
RNAi Products, Clones, and Q-PCR Products from Invitrogen, Millipore, OriGene, and/or Abnova, siRNAs from Applied Biosystems, SYBR primers from OriGene, Cell-based Assays from Millipore, Ontologies according to Gene Ontology Consortium 01 Apr 2009 via Entrez Gene.)
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Inhib.
RNA:
Invitrogen RNAi Products for gene knock-down (B3GNT6)
Browse for Gene Knock-down Tools from Millipore
Browse Abnova for Chimera RNAi Products
              OriGene 29mer shRNA kit in GFP-retroviral vector: NM_138706

              Applied Biosystems Silencer® siRNAs for B3GNT6

              Sigma-Aldrich siRNA for B3GNT6  
                     Sigma-Aldrich shRNA for B3GNT6  
                     Explore Sigma-Aldrich super-pooled esiRNAs  

Clones:Invitrogen Clones for B3GNT6
Browse Clones for the Expression of Recombinant Proteins Available from Millipore
              OriGene GFP tagged cDNA clone in CMV expression vector: NM_138706
                                 Myc/DDK tagged cDNA clone in CMV expression vector: NM_138706
                                 untagged cDNA clone in CMV expression vector: NM_138706 

Primers: Browse Quantitative PCR Central at Invitrogen for Q-PCR LUX™ Primers
              OriGene genome-wide validated SYBR primer pairs: NM_138706

UniProtKB/Swiss-Prot: B3GN6_HUMAN, Q6ZMB0
Function: Beta-1,3-N-acetylglucosaminyltransferase that synthesizes the core 3 structure of the
O-glycan, an important precursor in the biosynthesis of mucin-type glycoproteins. Plays an
important role in the synthesis of mucin-type O-glycans in digestive organs
Induction: Down-regulated in gastric and colorectal carcinomas, suggesting that it may be used as a
marker for distinguishing between benign adenomas and premalignant lesions (at protein level)
Enzyme Number (IUBMB): EC 2.4.1.- 

3 Gene Ontology (GO) molecular function terms (links to tree view):

GO IDQualified GO termEvidencePubMed IDs
GO:0008378 galactosyltransferase activity IDA11821425
GO:0016757 transferase activity, transferring glycosyl groups IEA--
GO:0047223 beta-1,3-galactosyl-O-glycosyl-glycoprotein beta-1,3-N-acetylglucosaminyltransferase activity NAS11821425
About this table

(Pathways according to Invitrogen (maps by GeneGo), Millipore, Cell Signaling Technology, Sigma-Aldrich, KEGG and/or UniProtKB,
Sets of similar genes according to GeneDecks, Proteins Network according to SABiosciences, Interactions according to 1UniProtKB, 2MINT, and/or 3STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Apr 2009 via Entrez Gene.)
About This Section


1 Sigma-Aldrich "Your Favorite Gene" Pathway for  B3GNT6  (Your Favorite Gene powered by Ingenuity) 
 O-Glycan Biosynthesis

   GeneDecks  B3GNT6 for the pathways selected above  
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1 Kegg Pathway  (Kegg details for B3GNT6):
 hsa00512 O-Glycan biosynthesis

   GeneDecks  B3GNT6 for the pathways selected above  
About GeneDecksing
UniProtKB/Swiss-Prot: B3GN6_HUMAN, Q6ZMB0
Pathway: Protein modification; protein glycosylation


5/23 Interacting proteins for B3GNT6 (ENSP000003462563) via UniProtKB, MINT, and/or STRING (see all 23 )

InteractantInteraction Details
GeneCardExternal ID(s)
C1GALT1ENSP000002231223STRING (score=.964)
GCNT1ENSP000003659203STRING (score=.902)
GCNT3ENSP000002678573STRING (score=.9)
C1GALT1C1ENSP000003603633STRING (score=.899)
GALNT1ENSP000002691953STRING (score=.899)
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2 Gene Ontology (GO) biological process terms (links to tree view):

GO IDQualified GO termEvidencePubMed IDs
GO:0006486 protein amino acid glycosylation IEA--
GO:0016269 O-glycan processing, core 3 NAS11821425
About this table
(Chemical Compounds according to UniProtKB, Enzo Life Sciences, Sigma-Aldrich, Tocris Bioscience, and/or Novoseek and Drugs according to Enzo Life Sciences and/or PharmGKB)
About This Section

Browse drugs & compounds from Enzo Life Sciences
Browse Small Molecules at Sigma-Aldrich

Browse Tocris compounds for B3GNT6

(GenBank/EMBL/DDBJ Accessions according to
Unigene (Build 219 Homo sapiens; Jun 2 2009) or GenBank,
RefSeq according to Entrez Gene,
DOTS (version 10), and/or AceView,
non coding RNAs according to RNAdb,
ESTs according to GeneTide,
exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
RNAi Products from Invitrogen, Millipore, and/or Abnova,
siRNAs from Applied Biosystems, Sigma-Aldrich,
shRNA from Sigma-Aldrich, OriGene,
Tagged/untagged cDNA clones from OriGene,
Expression Assays from Applied Biosystems)
About This Section

Inhib.
RNA:
Invitrogen RNAi Products for gene knock-down (B3GNT6)
Browse for Gene Knock-down Tools from Millipore
Browse Abnova for Chimera RNAi Products
              OriGene 29mer shRNA kit in GFP-retroviral vector: NM_138706

              Sigma-Aldrich siRNA for B3GNT6  
                     Sigma-Aldrich shRNA for B3GNT6  
                     Explore Sigma-Aldrich super-pooled esiRNAs  

Applied Biosystems Silencer® siRNAs: 

NM_138706  

REFSEQ mRNAs for B3GNT6 gene: 

NM_138706.3   

Applied Biosystems TaqMan ® Gene Expression Assays: 

NM_138706  

              OriGene GFP tagged cDNA clone in CMV expression vector: NM_138706
                                 Myc/DDK tagged cDNA clone in CMV expression vector: NM_138706
                                 untagged cDNA clone in CMV expression vector: NM_138706 

Additional cDNA sequence: 

AB073740.1 AK127544.1 AK172863.1 AK292773.1 AK313682.1 BC025357.1 BC103908.1 BC103909.2 
BC103910.1 

2 DOTS entries:

DT.75195592  DT.101975582 

19 AceView cDNA sequences:

BC025357 BX480039 AK172863 AB073740 AW192172 NM_138706 AK127544 CD636501 
CD636502 CD636507 CD636508 CD636506 CD636505 BX477104 CD636503 BP383116 
AW182889 CD636500 CD636499 

highest scoring ESTs for B3GNT6:

AB073740 AK172863 AW192172 BC025357 BX477104 CD636501 CD636502 CD636503 CD636505 CD636506 

Unigene Cluster for B3GNT6:

UDP-GlcNAc:betaGal beta-1,3-N-acetylglucosaminyltransferase 6 (core 3 synthase)
Hs.352622  [show with all ESTs]
Unigene Representative Sequence: NM_138706


GeneLoc Exon Structure

1 Ensembl transcript including schematic representation:
ENST00000354301  
(Experimental results according to 1GeneNote and GNF BioGPS,
probe sets-to-genes annotations according to 2GeneAnnot , 3GeneTide , Sets of similar genes according to GeneDecks, Electronic Northern calculations according to data from UniGene (Build 219 Homo sapiens), SAGE tags according to CGAP, plus additional links to SOURCE, and/or GNF BioGPS, and/or EXPOLDB, and/or UniProtKB,
Expression Assays from Applied Biosystems )
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B3GNT6 expression in normal and diseased human tissues

 Applied Biosystems TaqMan ® Gene Expression Assays for B3GNT6

1 / 2

2 probe-sets matching B3GNT6 gene


Affymetrix
probe-set
Array  GeneAnnot data GeneNote data GeneTide data
# genes Sensitivity Specificity Correlation Length Gb_Accession Consensus Uniqueness Score Rank

1552833_at2 U133Plus2 1 1.00 1.00 -- -- -- -- -- -- --

1552834_at2 U133Plus2 1 1.00 1.00 -- -- -- -- -- -- --
About this table
Data from (Publications) and GNF BioGPS
    About these images
About these images

CGAP SAGE TAG: --

SOURCE GeneReport for Unigene cluster: Hs.352622

Expression variation in blood from EXPOLDB for B3GNT6

UniProtKB/Swiss-Prot: B3GN6_HUMAN, Q6ZMB0
Tissue specificity: Present in stomach and colon (at protein level). Restricted in the stomach,
colon and small intestine, where core 3 structure is present

(Orthologs according to 1,2HomoloGene (2older version, for species not in 1newer version), 3euGenes, 4SGD and/or 5MGI Jun 06 2009, with possible further links to Flybase and/or WormBase, Gene Trees according to Ensembl)
About This Section


Orthologs for B3GNT6 gene from 5 species
Organism Gene Locus Description Human
Similarity
NCBI accessions
dog
(Canis familiaris)
B3GNT11   -- UDP-GlcNAc:betaGal beta-1,3-N-acetylglucosaminyltransferase more 86.63(n)
82.63(a)
485176  XM_542294.2  XP_542294.2 
chimpanzee
(Pan troglodytes)
B3GNT11   -- UDP-GlcNAc:betaGal beta-1,3-N-acetylglucosaminyltransferase more 99.05(n)
98.7(a)
451437  XM_001175035.1  XP_001175035.1 
rat
(Rattus norvegicus)
B3gnt61   -- UDP-GlcNAc:betaGal beta-1,3-N-acetylglucosaminyltransferase more 78.89(n)
73.58(a)
292325  XM_217903.4  XP_217903.3 
mouse
(Mus musculus)
B3gnt61, 5 75
UDP-GlcNAc:betaGal beta-1,3-N-acetylglucosaminyltransferase more1, 5 78.62(n)1
71.7(a)1
2724111  NM_001081167.11  NP_001074636.11 
 AK1404295  BC0397895  (see all 6)
fruit fly
(Drosophila melanogaster)
BEST:GH042693 60B11 N-acetyllactosaminide
beta-1,3-N-acetylglucosaminyltransferase
31(a)   --
About this table        Species with no ortholog for B3GNT6

ENSEMBL Gene Tree for B3GNT6
(Paralogs according to 1HomoloGene
and 2Ensembl, Pseudogenes according to 3Pseudogene.org)
About This Section

  --
(According to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, and UniProtKB, Linkage Disequilibrium by HapMap, Genotyping Reagents from Applied Biosystems)
About This Section


10/73 NCBI SNPs in B3GNT6 are shown (see all 73 )
(Click for Applied Biosystems TaqMan ® Genotyping Assay)  (see all 32)
ABGenomic DataTranscription DataAllele Frequencies
SNP IDValidChr 11 posSequenceRecsAA
Chg
TypeMoreRecsAllele
freq
PopTotal
sample
More
------------
rs79505061,2
A,C,F,H76429896(+) ACAGTG/ATCAGG 1 -- ut31 ese35Minor allele frequency- A:0.26EU EA WA 590
--
rs118270491,2
A,C76422170(+) aaagtG/Ttctct 1 -- ng510--------
--
rs112370641,2
A76430999(+) CTGTCA/GGCCTC 1 -- ng310--------
--
rs74837801,2
A76421438(+) acataC/Tatata 1 -- ng510--------
--
rs127881991,2
H76422037(+) ctcggG/Aaggct 1 -- ng512Minor allele frequency- A:0.00EA 178
rs18940081,2
A,C,F,H76425830(-) CCGCTC/TCTCAT 1 -- int19Minor allele frequency- T:0.19EU EA WA 1016
rs112370611,2
A,C,F,H76425847(+) TCTACG/ATAATT 1 -- int112Minor allele frequency- A:0.38EU EA WA 1254
rs124220791,2
A,C,F,H76428054(+) AGAGGA/CACGGT 1 -- int19Minor allele frequency- C:0.27EU EA WA 1018
rs108993451,2
A,C,F,H76425167(+) GGTGCG/AATAAC 1 -- int116Minor allele frequency- A:0.49EU EA WA NA 1618
rs108993461,2
A,C,F,H76425273(+) CAGCTT/AATATT 1 -- int112Minor allele frequency- A:0.50EU EA WA 1254
About this table

HapMap Linkage Disequilibrium images for B3GNT6 (up to first 250kb)

(in which this Gene is Involved, According to OMIM, UniProtKB, PharmGKB, Genatlas, GeneTests, Blood group antigen gene mutations by BGMUT, HGMD, GAD, HuGE Navigator, BCGD, and/or TGDB.)
About This Section

  --

(Possibly Related Articles in Doctor's Guide)
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  --

(in PubMed. Associations of this gene to articles via 1Novoseek, 2HGNC, 3Entrez Gene, 4UniProtKB/Swiss-Prot, 5UniProtKB/TrEMBL, 6GAD, and/or 7PharmGKB)
About This Section

6 PubMed articles for B3GNT6 gene:
(in PubMed, OMIM, and NCBI Bookshelf)
About This Section

 ANDOR
Aliases
Free Text  

  Query String
PubMed
OMIM
NCBI Bookshelf
  (Note: In FireFox, select the above section and copy using Ctrl-C)
(According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, and/or H-InvDB)
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Entrez Gene: 192134 HGNC: 24141 AceView: Galactosyl_T.2 Ensembl:ENSG00000198488 euGenes: HUgn192134
ECgene: B3GNT6 H-InvDB: B3GNT6
(According to HUGE)
About This Section

  --
(According to ATLAS, HORDE, IMGT, MTDB, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
About This Section

NameDescription
GGDBhttp://riodb.ibase.aist.go.jp/rcmg/ggdb/Homolog?cat=symbol&symbol=B3GNT6
(Available from WIS Yeda, Salk, Tufts)
About This Section

  --
(Reagents available from Applied Biosystems, Antibodies and assays by Cell Signaling Technology, Abcam, Novus Biologicals,
Sigma-Aldrich, R&D Systems, Millipore, Abnova, and/or Invitrogen, Clones available from OriGene,and/or Invitrogen, Drugs and/or compounds by Sigma-Aldrich,
Enzo Life Sciences, and/or Tocris Bioscience)
About This Section



Products for B3GNT6:
 TaqMan ® Gene Expression Assays
 TaqMan ® Genotyping Assays
  Free SNP selection tool



  Invitrogen iPath Pathways  Invitrogen BLOCK-iT™ RNAi
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 Predesigned and custom siRNAs for B3GNT6 Browse antibodies at Sigma-Aldrich
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 Lentivirus-delivered shRNAs for B3GNT6 Browse small molecules at Sigma-Aldrich
 "Your Favorite Gene" Pathwaysfeedback


  
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