Atlas of Genetics and Cytogenetics in Oncology and Haematology


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COLGALT2 (collagen beta(1-O)galactosyltransferase 2)

Identity

Alias_namesC1orf17
GLT25D2
chromosome 1 open reading frame 17
glycosyltransferase 25 domain containing 2
Alias_symbol (synonym)KIAA0584
Other alias
HGNC (Hugo) COLGALT2
LocusID (NCBI) 23127
Atlas_Id 62009
Location 1q25.3  [Link to chromosome band 1q25]
Location_base_pair Starts at 183929662 and ends at 184037770 bp from pter ( according to hg38-Dec_2013)
Fusion genes
(updated 2017)
Data from Atlas, Mitelman, Cosmic Fusion, Fusion Cancer, TCGA fusion databases with official HUGO symbols (see references in chromosomal bands)
COLGALT2 (1q25.3) / MAP1B (5q13.2)NOS1AP (1q23.3) / COLGALT2 (1q25.3)

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)COLGALT2   16790
Cards
Entrez_Gene (NCBI)COLGALT2  23127  collagen beta(1-O)galactosyltransferase 2
AliasesC1orf17; GLT25D2
GeneCards (Weizmann)COLGALT2
Ensembl hg19 (Hinxton)ENSG00000198756 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000198756 [Gene_View]  chr1:183929662-184037770 [Contig_View]  COLGALT2 [Vega]
ICGC DataPortalENSG00000198756
TCGA cBioPortalCOLGALT2
AceView (NCBI)COLGALT2
Genatlas (Paris)COLGALT2
WikiGenes23127
SOURCE (Princeton)COLGALT2
Genetics Home Reference (NIH)COLGALT2
Genomic and cartography
GoldenPath hg38 (UCSC)COLGALT2  -     chr1:183929662-184037770 -  1q25.3   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)COLGALT2  -     1q25.3   [Description]    (hg19-Feb_2009)
EnsemblCOLGALT2 - 1q25.3 [CytoView hg19]  COLGALT2 - 1q25.3 [CytoView hg38]
Mapping of homologs : NCBICOLGALT2 [Mapview hg19]  COLGALT2 [Mapview hg38]
Gene and transcription
Genbank (Entrez)AB011156 AF288389 AK095090 AK095192 AK127287
RefSeq transcript (Entrez)NM_001303420 NM_001303421 NM_015101
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)COLGALT2
Cluster EST : UnigeneHs.387995 [ NCBI ]
CGAP (NCI)Hs.387995
Alternative Splicing GalleryENSG00000198756
Gene ExpressionCOLGALT2 [ NCBI-GEO ]   COLGALT2 [ EBI - ARRAY_EXPRESS ]   COLGALT2 [ SEEK ]   COLGALT2 [ MEM ]
Gene Expression Viewer (FireBrowse)COLGALT2 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevestigatorExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)23127
GTEX Portal (Tissue expression)COLGALT2
Human Protein AtlasENSG00000198756-COLGALT2 [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ8IYK4   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ8IYK4  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ8IYK4
Splice isoforms : SwissVarQ8IYK4
PhosPhoSitePlusQ8IYK4
Domaine pattern : Prosite (Expaxy)ER_TARGET (PS00014)   
Domains : Interpro (EBI)Glyco_trans_25    Nucleotide-diphossugar_trans   
Domain families : Pfam (Sanger)Glyco_transf_25 (PF01755)   
Domain families : Pfam (NCBI)pfam01755   
Conserved Domain (NCBI)COLGALT2
DMDM Disease mutations23127
Blocks (Seattle)COLGALT2
SuperfamilyQ8IYK4
Human Protein Atlas [tissue]ENSG00000198756-COLGALT2 [tissue]
Peptide AtlasQ8IYK4
HPRD13583
IPIIPI00514694   IPI01009192   IPI00815809   IPI00642522   IPI00641762   
Protein Interaction databases
DIP (DOE-UCLA)Q8IYK4
IntAct (EBI)Q8IYK4
FunCoupENSG00000198756
BioGRIDCOLGALT2
STRING (EMBL)COLGALT2
ZODIACCOLGALT2
Ontologies - Pathways
QuickGOQ8IYK4
Ontology : AmiGOprotein binding  endoplasmic reticulum lumen  procollagen galactosyltransferase activity  
Ontology : EGO-EBIprotein binding  endoplasmic reticulum lumen  procollagen galactosyltransferase activity  
Pathways : KEGGLysine degradation    Other types of O-glycan biosynthesis   
NDEx NetworkCOLGALT2
Atlas of Cancer Signalling NetworkCOLGALT2
Wikipedia pathwaysCOLGALT2
Orthology - Evolution
OrthoDB23127
GeneTree (enSembl)ENSG00000198756
Phylogenetic Trees/Animal Genes : TreeFamCOLGALT2
HOVERGENQ8IYK4
HOGENOMQ8IYK4
Homologs : HomoloGeneCOLGALT2
Homology/Alignments : Family Browser (UCSC)COLGALT2
Gene fusions - Rearrangements
Tumor Fusion PortalCOLGALT2
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerCOLGALT2 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)COLGALT2
dbVarCOLGALT2
ClinVarCOLGALT2
1000_GenomesCOLGALT2 
Exome Variant ServerCOLGALT2
ExAC (Exome Aggregation Consortium)ENSG00000198756
GNOMAD BrowserENSG00000198756
Genetic variants : HAPMAP23127
Genomic Variants (DGV)COLGALT2 [DGVbeta]
DECIPHERCOLGALT2 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisCOLGALT2 
Mutations
ICGC Data PortalCOLGALT2 
TCGA Data PortalCOLGALT2 
Broad Tumor PortalCOLGALT2
OASIS PortalCOLGALT2 [ Somatic mutations - Copy number]
Mutations and Diseases : HGMDCOLGALT2
BioMutasearch COLGALT2
DgiDB (Drug Gene Interaction Database)COLGALT2
DoCM (Curated mutations)COLGALT2 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)COLGALT2 (select a term)
intoGenCOLGALT2
Cancer3DCOLGALT2(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM
Orphanet
DisGeNETCOLGALT2
MedgenCOLGALT2
Genetic Testing Registry COLGALT2
NextProtQ8IYK4 [Medical]
TSGene23127
GENETestsCOLGALT2
Target ValidationCOLGALT2
Huge Navigator COLGALT2 [HugePedia]
snp3D : Map Gene to Disease23127
BioCentury BCIQCOLGALT2
ClinGenCOLGALT2
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD23127
Chemical/Pharm GKB GenePA25606
Clinical trialCOLGALT2
Miscellaneous
canSAR (ICR)COLGALT2 (select the gene name)
Probes
Litterature
PubMed16 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineCOLGALT2
EVEXCOLGALT2
GoPubMedCOLGALT2
iHOPCOLGALT2
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Tue Nov 21 12:59:45 CET 2017

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