Atlas of Genetics and Cytogenetics in Oncology and Haematology


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CSGALNACT2 (chondroitin sulfate N-acetylgalactosaminyltransferase 2)

Identity

Alias_symbol (synonym)GALNACT2
MGC40204
PRO0082
GALNACT-2
Other aliasCHGN2
ChGn-2
beta4GalNAcT
HGNC (Hugo) CSGALNACT2
LocusID (NCBI) 55454
Atlas_Id 62121
Location 10q11.21  [Link to chromosome band 10q11]
Location_base_pair Starts at 43154897 and ends at 43185306 bp from pter ( according to hg38-Dec_2013)
Fusion genes
(updated 2016)
CSGALNACT2 (10q11.21) / ACKR3 (2q37.3)CSGALNACT2 (10q11.21) / CDR2 (16p12.2)CSGALNACT2 (10q11.21) / PDXDC1 (16p13.11)
CSGALNACT2 (10q11.21) / SLC16A9 (10q21.2)

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)CSGALNACT2   24292
Cards
Entrez_Gene (NCBI)CSGALNACT2  55454  chondroitin sulfate N-acetylgalactosaminyltransferase 2
AliasesCHGN2; ChGn-2; GALNACT-2; GALNACT2; 
PRO0082; beta4GalNAcT
GeneCards (Weizmann)CSGALNACT2
Ensembl hg19 (Hinxton)ENSG00000169826 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000169826 [Gene_View]  chr10:43154897-43185306 [Contig_View]  CSGALNACT2 [Vega]
ICGC DataPortalENSG00000169826
TCGA cBioPortalCSGALNACT2
AceView (NCBI)CSGALNACT2
Genatlas (Paris)CSGALNACT2
WikiGenes55454
SOURCE (Princeton)CSGALNACT2
Genetics Home Reference (NIH)CSGALNACT2
Genomic and cartography
GoldenPath hg38 (UCSC)CSGALNACT2  -     chr10:43154897-43185306 +  10q11.21   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)CSGALNACT2  -     10q11.21   [Description]    (hg19-Feb_2009)
EnsemblCSGALNACT2 - 10q11.21 [CytoView hg19]  CSGALNACT2 - 10q11.21 [CytoView hg38]
Mapping of homologs : NCBICSGALNACT2 [Mapview hg19]  CSGALNACT2 [Mapview hg38]
OMIM616616   
Gene and transcription
Genbank (Entrez)AA721408 AB079252 AB090811 AF086458 AF116646
RefSeq transcript (Entrez)NM_001319654 NM_001319656 NM_018590
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)CSGALNACT2
Cluster EST : UnigeneHs.744559 [ NCBI ]
CGAP (NCI)Hs.744559
Alternative Splicing GalleryENSG00000169826
Gene ExpressionCSGALNACT2 [ NCBI-GEO ]   CSGALNACT2 [ EBI - ARRAY_EXPRESS ]   CSGALNACT2 [ SEEK ]   CSGALNACT2 [ MEM ]
Gene Expression Viewer (FireBrowse)CSGALNACT2 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevisibleExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)55454
GTEX Portal (Tissue expression)CSGALNACT2
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ8N6G5   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ8N6G5  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ8N6G5
Splice isoforms : SwissVarQ8N6G5
Catalytic activity : Enzyme2.4.1.174 [ Enzyme-Expasy ]   2.4.1.1742.4.1.174 [ IntEnz-EBI ]   2.4.1.174 [ BRENDA ]   2.4.1.174 [ KEGG ]   
PhosPhoSitePlusQ8N6G5
Domains : Interpro (EBI)Chond_GalNAc    Nucleotide-diphossugar_trans   
Domain families : Pfam (Sanger)CHGN (PF05679)   
Domain families : Pfam (NCBI)pfam05679   
Conserved Domain (NCBI)CSGALNACT2
DMDM Disease mutations55454
Blocks (Seattle)CSGALNACT2
SuperfamilyQ8N6G5
Human Protein AtlasENSG00000169826
Peptide AtlasQ8N6G5
HPRD11348
IPIIPI00171135   IPI00549699   IPI00006066   
Protein Interaction databases
DIP (DOE-UCLA)Q8N6G5
IntAct (EBI)Q8N6G5
FunCoupENSG00000169826
BioGRIDCSGALNACT2
STRING (EMBL)CSGALNACT2
ZODIACCSGALNACT2
Ontologies - Pathways
QuickGOQ8N6G5
Ontology : AmiGOGolgi membrane  protein binding  acetylgalactosaminyltransferase activity  membrane  proteoglycan biosynthetic process  integral component of Golgi membrane  chondroitin sulfate biosynthetic process  Golgi cisterna membrane  metal ion binding  glucuronylgalactosylproteoglycan 4-beta-N-acetylgalactosaminyltransferase activity  glucuronosyl-N-acetylgalactosaminyl-proteoglycan 4-beta-N-acetylgalactosaminyltransferase activity  chondroitin sulfate proteoglycan biosynthetic process  dermatan sulfate proteoglycan biosynthetic process  dermatan sulfate proteoglycan biosynthetic process, polysaccharide chain biosynthetic process  chondroitin sulfate proteoglycan biosynthetic process, polysaccharide chain biosynthetic process  
Ontology : EGO-EBIGolgi membrane  protein binding  acetylgalactosaminyltransferase activity  membrane  proteoglycan biosynthetic process  integral component of Golgi membrane  chondroitin sulfate biosynthetic process  Golgi cisterna membrane  metal ion binding  glucuronylgalactosylproteoglycan 4-beta-N-acetylgalactosaminyltransferase activity  glucuronosyl-N-acetylgalactosaminyl-proteoglycan 4-beta-N-acetylgalactosaminyltransferase activity  chondroitin sulfate proteoglycan biosynthetic process  dermatan sulfate proteoglycan biosynthetic process  dermatan sulfate proteoglycan biosynthetic process, polysaccharide chain biosynthetic process  chondroitin sulfate proteoglycan biosynthetic process, polysaccharide chain biosynthetic process  
Pathways : KEGGGlycosaminoglycan biosynthesis - chondroitin sulfate / dermatan sulfate   
NDEx NetworkCSGALNACT2
Atlas of Cancer Signalling NetworkCSGALNACT2
Wikipedia pathwaysCSGALNACT2
Orthology - Evolution
OrthoDB55454
GeneTree (enSembl)ENSG00000169826
Phylogenetic Trees/Animal Genes : TreeFamCSGALNACT2
HOVERGENQ8N6G5
HOGENOMQ8N6G5
Homologs : HomoloGeneCSGALNACT2
Homology/Alignments : Family Browser (UCSC)CSGALNACT2
Gene fusions - Rearrangements
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerCSGALNACT2 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)CSGALNACT2
dbVarCSGALNACT2
ClinVarCSGALNACT2
1000_GenomesCSGALNACT2 
Exome Variant ServerCSGALNACT2
ExAC (Exome Aggregation Consortium)CSGALNACT2 (select the gene name)
Genetic variants : HAPMAP55454
Genomic Variants (DGV)CSGALNACT2 [DGVbeta]
DECIPHERCSGALNACT2 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisCSGALNACT2 
Mutations
ICGC Data PortalCSGALNACT2 
TCGA Data PortalCSGALNACT2 
Broad Tumor PortalCSGALNACT2
OASIS PortalCSGALNACT2 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICCSGALNACT2  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDCSGALNACT2
LOVD (Leiden Open Variation Database)Whole genome datasets
LOVD (Leiden Open Variation Database)LOVD - Leiden Open Variation Database
LOVD (Leiden Open Variation Database)LOVD 3.0 shared installation
BioMutasearch CSGALNACT2
DgiDB (Drug Gene Interaction Database)CSGALNACT2
DoCM (Curated mutations)CSGALNACT2 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)CSGALNACT2 (select a term)
intoGenCSGALNACT2
Cancer3DCSGALNACT2(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM616616   
Orphanet
MedgenCSGALNACT2
Genetic Testing Registry CSGALNACT2
NextProtQ8N6G5 [Medical]
TSGene55454
GENETestsCSGALNACT2
Target ValidationCSGALNACT2
Huge Navigator CSGALNACT2 [HugePedia]
snp3D : Map Gene to Disease55454
BioCentury BCIQCSGALNACT2
ClinGenCSGALNACT2
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD55454
Chemical/Pharm GKB GenePA162382854
Clinical trialCSGALNACT2
Miscellaneous
canSAR (ICR)CSGALNACT2 (select the gene name)
Probes
Litterature
PubMed21 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineCSGALNACT2
EVEXCSGALNACT2
GoPubMedCSGALNACT2
iHOPCSGALNACT2
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Mon Sep 18 13:05:27 CEST 2017

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