Atlas of Genetics and Cytogenetics in Oncology and Haematology


Home   Genes   Leukemias   Solid Tumours   Cancer-Prone   Deep Insight   Case Reports   Journals  Portal   Teaching   

X Y 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 NA

GALNT2 (polypeptide N-acetylgalactosaminyltransferase 2)

Identity

Alias_namesUDP-N-acetyl-alpha-D-galactosamine:polypeptide N-acetylgalactosaminyltransferase 2 (GalNAc-T2)
Alias_symbol (synonym)GalNAc-T2
Other alias
HGNC (Hugo) GALNT2
LocusID (NCBI) 2590
Atlas_Id 56469
Location 1q42.13  [Link to chromosome band 1q42]
Location_base_pair Starts at 230193536 and ends at 230417876 bp from pter ( according to hg19-Feb_2009)
Fusion genes
(updated 2016)
GALNT2 (1q42.13) / AUTS2 (7q11.22)GALNT2 (1q42.13) / BRD9 (5p15.33)GALNT2 (1q42.13) / C1orf198 (1q42.2)
GALNT2 (1q42.13) / GALNT2 (1q42.13)GALNT2 (1q42.13) / KIF26B (1q44)GALNT2 (1q42.13) / MEMO1 (2p23.1)
SMOC1 (14q24.2) / GALNT2 (1q42.13)ZNF664 (12q24.31) / GALNT2 (1q42.13)

Note

Non-annotated gene. Preliminary data : if you are an author
who wish to write a full paper/card on this gene, go to  How to contribute

DNA/RNA

 


External links

Nomenclature
HGNC (Hugo)GALNT2   4124
Cards
Entrez_Gene (NCBI)GALNT2  2590  polypeptide N-acetylgalactosaminyltransferase 2
AliasesGalNAc-T2
GeneCards (Weizmann)GALNT2
Ensembl hg19 (Hinxton)ENSG00000143641 [Gene_View]  chr1:230193536-230417876 [Contig_View]  GALNT2 [Vega]
Ensembl hg38 (Hinxton)ENSG00000143641 [Gene_View]  chr1:230193536-230417876 [Contig_View]  GALNT2 [Vega]
ICGC DataPortalENSG00000143641
TCGA cBioPortalGALNT2
AceView (NCBI)GALNT2
Genatlas (Paris)GALNT2
WikiGenes2590
SOURCE (Princeton)GALNT2
Genetics Home Reference (NIH)GALNT2
Genomic and cartography
GoldenPath hg19 (UCSC)GALNT2  -     chr1:230193536-230417876 +  1q42.13   [Description]    (hg19-Feb_2009)
GoldenPath hg38 (UCSC)GALNT2  -     1q42.13   [Description]    (hg38-Dec_2013)
EnsemblGALNT2 - 1q42.13 [CytoView hg19]  GALNT2 - 1q42.13 [CytoView hg38]
Mapping of homologs : NCBIGALNT2 [Mapview hg19]  GALNT2 [Mapview hg38]
OMIM602274   
Gene and transcription
Genbank (Entrez)-
RefSeq transcript (Entrez)NM_001291866 NM_004481
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)GALNT2
Cluster EST : UnigeneHs.743964 [ NCBI ]
CGAP (NCI)Hs.743964
Alternative Splicing GalleryENSG00000143641
Gene ExpressionGALNT2 [ NCBI-GEO ]   GALNT2 [ EBI - ARRAY_EXPRESS ]   GALNT2 [ SEEK ]   GALNT2 [ MEM ]
Gene Expression Viewer (FireBrowse)GALNT2 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevisibleExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)2590
GTEX Portal (Tissue expression)GALNT2
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ10471   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ10471  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ10471
Splice isoforms : SwissVarQ10471
Catalytic activity : Enzyme2.4.1.41 [ Enzyme-Expasy ]   2.4.1.412.4.1.41 [ IntEnz-EBI ]   2.4.1.41 [ BRENDA ]   2.4.1.41 [ KEGG ]   
PhosPhoSitePlusQ10471
Domaine pattern : Prosite (Expaxy)RICIN_B_LECTIN (PS50231)   
Domains : Interpro (EBI)Glyco_trans_2-like    Nucleotide-diphossugar_trans    Ricin_B_lectin   
Domain families : Pfam (Sanger)Glycos_transf_2 (PF00535)    Ricin_B_lectin (PF00652)   
Domain families : Pfam (NCBI)pfam00535    pfam00652   
Domain families : Smart (EMBL)RICIN (SM00458)  
Conserved Domain (NCBI)GALNT2
DMDM Disease mutations2590
Blocks (Seattle)GALNT2
PDB (SRS)2FFU    2FFV    4D0T    4D0Z    4D11    5AJN    5AJO    5AJP    5FV9   
PDB (PDBSum)2FFU    2FFV    4D0T    4D0Z    4D11    5AJN    5AJO    5AJP    5FV9   
PDB (IMB)2FFU    2FFV    4D0T    4D0Z    4D11    5AJN    5AJO    5AJP    5FV9   
PDB (RSDB)2FFU    2FFV    4D0T    4D0Z    4D11    5AJN    5AJO    5AJP    5FV9   
Structural Biology KnowledgeBase2FFU    2FFV    4D0T    4D0Z    4D11    5AJN    5AJO    5AJP    5FV9   
SCOP (Structural Classification of Proteins)2FFU    2FFV    4D0T    4D0Z    4D11    5AJN    5AJO    5AJP    5FV9   
CATH (Classification of proteins structures)2FFU    2FFV    4D0T    4D0Z    4D11    5AJN    5AJO    5AJP    5FV9   
SuperfamilyQ10471
Human Protein AtlasENSG00000143641
Peptide AtlasQ10471
HPRD03782
IPIIPI00004669   IPI00921824   IPI00922793   IPI01012012   
Protein Interaction databases
DIP (DOE-UCLA)Q10471
IntAct (EBI)Q10471
FunCoupENSG00000143641
BioGRIDGALNT2
STRING (EMBL)GALNT2
ZODIACGALNT2
Ontologies - Pathways
QuickGOQ10471
Ontology : AmiGOGolgi membrane  immunoglobulin biosynthetic process  polypeptide N-acetylgalactosaminyltransferase activity  polypeptide N-acetylgalactosaminyltransferase activity  endoplasmic reticulum membrane  Golgi apparatus  Golgi apparatus  Golgi stack  protein O-linked glycosylation  membrane  O-glycan processing  O-glycan processing  protein O-linked glycosylation via serine  protein O-linked glycosylation via threonine  manganese ion binding  integral component of Golgi membrane  carbohydrate binding  Golgi cisterna membrane  perinuclear region of cytoplasm  extracellular exosome  
Ontology : EGO-EBIGolgi membrane  immunoglobulin biosynthetic process  polypeptide N-acetylgalactosaminyltransferase activity  polypeptide N-acetylgalactosaminyltransferase activity  endoplasmic reticulum membrane  Golgi apparatus  Golgi apparatus  Golgi stack  protein O-linked glycosylation  membrane  O-glycan processing  O-glycan processing  protein O-linked glycosylation via serine  protein O-linked glycosylation via threonine  manganese ion binding  integral component of Golgi membrane  carbohydrate binding  Golgi cisterna membrane  perinuclear region of cytoplasm  extracellular exosome  
Pathways : KEGGMucin type O-Glycan biosynthesis   
NDEx NetworkGALNT2
Atlas of Cancer Signalling NetworkGALNT2
Wikipedia pathwaysGALNT2
Orthology - Evolution
OrthoDB2590
GeneTree (enSembl)ENSG00000143641
Phylogenetic Trees/Animal Genes : TreeFamGALNT2
HOVERGENQ10471
HOGENOMQ10471
Homologs : HomoloGeneGALNT2
Homology/Alignments : Family Browser (UCSC)GALNT2
Gene fusions - Rearrangements
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerGALNT2 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)GALNT2
dbVarGALNT2
ClinVarGALNT2
1000_GenomesGALNT2 
Exome Variant ServerGALNT2
ExAC (Exome Aggregation Consortium)GALNT2 (select the gene name)
Genetic variants : HAPMAP2590
Genomic Variants (DGV)GALNT2 [DGVbeta]
DECIPHER (Syndromes)1:230193536-230417876  ENSG00000143641
CONAN: Copy Number AnalysisGALNT2 
Mutations
ICGC Data PortalGALNT2 
TCGA Data PortalGALNT2 
Broad Tumor PortalGALNT2
OASIS PortalGALNT2 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICGALNT2  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDGALNT2
LOVD (Leiden Open Variation Database)Whole genome datasets
LOVD (Leiden Open Variation Database)LOVD 3.0 shared installation
BioMutasearch GALNT2
DgiDB (Drug Gene Interaction Database)GALNT2
DoCM (Curated mutations)GALNT2 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)GALNT2 (select a term)
intoGenGALNT2
Cancer3DGALNT2(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM602274   
Orphanet
MedgenGALNT2
Genetic Testing Registry GALNT2
NextProtQ10471 [Medical]
TSGene2590
GENETestsGALNT2
Huge Navigator GALNT2 [HugePedia]
snp3D : Map Gene to Disease2590
BioCentury BCIQGALNT2
ClinGenGALNT2
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD2590
Chemical/Pharm GKB GenePA28537
Clinical trialGALNT2
Miscellaneous
canSAR (ICR)GALNT2 (select the gene name)
Probes
Litterature
PubMed71 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineGALNT2
EVEXGALNT2
GoPubMedGALNT2
iHOPGALNT2
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

Search in all EBI   NCBI

© Atlas of Genetics and Cytogenetics in Oncology and Haematology
indexed on : Tue Mar 14 13:07:01 CET 2017

Home   Genes   Leukemias   Solid Tumours   Cancer-Prone   Deep Insight   Case Reports   Journals  Portal   Teaching   

For comments and suggestions or contributions, please contact us

jlhuret@AtlasGeneticsOncology.org.