Atlas of Genetics and Cytogenetics in Oncology and Haematology

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CLGN (calmegin)

Identity

Alias (NCBI)-
HGNC (Hugo) CLGN
LocusID (NCBI) 1047
Atlas_Id 78352
Location 4q31.1  [Link to chromosome band 4q31]
Location_base_pair Starts at 140388453 and ends at 140427661 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)
MALAT1 (11q13.1) / CLGN (4q31.1)MAML3 (4q31.1) / CLGN (4q31.1)

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

 

Other Solid tumors implicated (Data extracted from papers in the Atlas) [ 1 ]
  MAML3/CLGN (4q31)

External links

Nomenclature
HGNC (Hugo)CLGN   2060
Cards
Entrez_Gene (NCBI)CLGN    calmegin
Aliases
GeneCards (Weizmann)CLGN
Ensembl hg19 (Hinxton)ENSG00000153132 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000153132 [Gene_View]  ENSG00000153132 [Sequence]  chr4:140388453-140427661 [Contig_View]  CLGN [Vega]
ICGC DataPortalENSG00000153132
TCGA cBioPortalCLGN
AceView (NCBI)CLGN
Genatlas (Paris)CLGN
SOURCE (Princeton)CLGN
Genetics Home Reference (NIH)CLGN
Genomic and cartography
GoldenPath hg38 (UCSC)CLGN  -     chr4:140388453-140427661 -  4q31.1   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)CLGN  -     4q31.1   [Description]    (hg19-Feb_2009)
GoldenPathCLGN - 4q31.1 [CytoView hg19]  CLGN - 4q31.1 [CytoView hg38]
ImmunoBaseENSG00000153132
genome Data Viewer NCBICLGN [Mapview hg19]  
OMIM601858   
Gene and transcription
Genbank (Entrez)AK093096 AK290819 AK299243 AK302149 AL045602
RefSeq transcript (Entrez)NM_001130675 NM_004362
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)CLGN
Alternative Splicing GalleryENSG00000153132
Gene ExpressionCLGN [ NCBI-GEO ]   CLGN [ EBI - ARRAY_EXPRESS ]   CLGN [ SEEK ]   CLGN [ MEM ]
Gene Expression Viewer (FireBrowse)CLGN [ Firebrowse - Broad ]
GenevisibleExpression of CLGN in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)1047
GTEX Portal (Tissue expression)CLGN
Human Protein AtlasENSG00000153132-CLGN [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtO14967   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtO14967  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProO14967
Splice isoforms : SwissVarO14967
PhosPhoSitePlusO14967
Domaine pattern : Prosite (Expaxy)CALRETICULIN_1 (PS00803)    CALRETICULIN_2 (PS00804)    CALRETICULIN_REPEAT (PS00805)   
Domains : Interpro (EBI)Calret/calnex    Calret/calnex_CS    Calreticulin/calnexin_P_dom_sf    ConA-like_dom_sf   
Domain families : Pfam (Sanger)Calreticulin (PF00262)   
Domain families : Pfam (NCBI)pfam00262   
Conserved Domain (NCBI)CLGN
Blocks (Seattle)CLGN
SuperfamilyO14967
Human Protein Atlas [tissue]ENSG00000153132-CLGN [tissue]
Peptide AtlasO14967
HPRD03513
IPIIPI00024776   IPI01012939   IPI00910000   IPI00967984   
Protein Interaction databases
DIP (DOE-UCLA)O14967
IntAct (EBI)O14967
BioGRIDCLGN
STRING (EMBL)CLGN
ZODIACCLGN
Ontologies - Pathways
QuickGOO14967
Ontology : AmiGOcalcium ion binding  nuclear envelope  endoplasmic reticulum  endoplasmic reticulum membrane  protein folding  single fertilization  binding of sperm to zona pellucida  integral component of membrane  endoplasmic reticulum unfolded protein response  protein binding involved in protein folding  unfolded protein binding  protein-containing complex assembly  
Ontology : EGO-EBIcalcium ion binding  nuclear envelope  endoplasmic reticulum  endoplasmic reticulum membrane  protein folding  single fertilization  binding of sperm to zona pellucida  integral component of membrane  endoplasmic reticulum unfolded protein response  protein binding involved in protein folding  unfolded protein binding  protein-containing complex assembly  
NDEx NetworkCLGN
Atlas of Cancer Signalling NetworkCLGN
Wikipedia pathwaysCLGN
Orthology - Evolution
OrthoDB1047
GeneTree (enSembl)ENSG00000153132
Phylogenetic Trees/Animal Genes : TreeFamCLGN
HOGENOMO14967
Homologs : HomoloGeneCLGN
Homology/Alignments : Family Browser (UCSC)CLGN
Gene fusions - Rearrangements
Fusion : QuiverCLGN
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerCLGN [hg38]
dbVarCLGN
ClinVarCLGN
MonarchCLGN
1000_GenomesCLGN 
Exome Variant ServerCLGN
GNOMAD BrowserENSG00000153132
Varsome BrowserCLGN
Genomic Variants (DGV)CLGN [DGVbeta]
DECIPHERCLGN [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisCLGN 
Mutations
ICGC Data PortalCLGN 
TCGA Data PortalCLGN 
Broad Tumor PortalCLGN
OASIS PortalCLGN [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICCLGN  [overview]  [genome browser]  [tissue]  [distribution]  
Somatic Mutations in Cancer : COSMIC3DCLGN
Mutations and Diseases : HGMDCLGN
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 CLGN
DgiDB (Drug Gene Interaction Database)CLGN
DoCM (Curated mutations)CLGN (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)CLGN (select a term)
intoGenCLGN
Cancer3DCLGN(select the gene name)
Impact of mutations[PolyPhen2] [Provean] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM601858   
Orphanet
DisGeNETCLGN
MedgenCLGN
Genetic Testing Registry CLGN
NextProtO14967 [Medical]
GENETestsCLGN
Target ValidationCLGN
Huge Navigator CLGN [HugePedia]
ClinGenCLGN
Clinical trials, drugs, therapy
MyCancerGenomeCLGN
Protein Interactions : CTD
Pharm GKB GenePA26587
Clinical trialCLGN
Miscellaneous
canSAR (ICR)CLGN (select the gene name)
HarmonizomeCLGN
DataMed IndexCLGN
Probes
Litterature
PubMed33 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineCLGN
EVEXCLGN
GoPubMedCLGN
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Sat Dec 5 16:50:08 CET 2020
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