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COL20A1 (collagen type XX alpha 1 chain)

Identity

Alias_namescollagen, type XX, alpha 1
Alias_symbol (synonym)KIAA1510
Other aliasbA261N11.4
HGNC (Hugo) COL20A1
LocusID (NCBI) 57642
Atlas_Id 61986
Location 20q13.33  [Link to chromosome band 20q13]
Location_base_pair Starts at 63293186 and ends at 63330933 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)

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)COL20A1   14670
Cards
Entrez_Gene (NCBI)COL20A1  57642  collagen type XX alpha 1 chain
AliasesbA261N11.4
GeneCards (Weizmann)COL20A1
Ensembl hg19 (Hinxton)ENSG00000101203 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000101203 [Gene_View]  chr20:63293186-63330933 [Contig_View]  COL20A1 [Vega]
ICGC DataPortalENSG00000101203
TCGA cBioPortalCOL20A1
AceView (NCBI)COL20A1
Genatlas (Paris)COL20A1
WikiGenes57642
SOURCE (Princeton)COL20A1
Genetics Home Reference (NIH)COL20A1
Genomic and cartography
GoldenPath hg38 (UCSC)COL20A1  -     chr20:63293186-63330933 +  20q13.33   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)COL20A1  -     20q13.33   [Description]    (hg19-Feb_2009)
EnsemblCOL20A1 - 20q13.33 [CytoView hg19]  COL20A1 - 20q13.33 [CytoView hg38]
Mapping of homologs : NCBICOL20A1 [Mapview hg19]  COL20A1 [Mapview hg38]
Gene and transcription
Genbank (Entrez)AB040943 AK098702 AL390141 BC013658 BC019637
RefSeq transcript (Entrez)NM_020882
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)COL20A1
Cluster EST : UnigeneHs.271285 [ NCBI ]
CGAP (NCI)Hs.271285
Alternative Splicing GalleryENSG00000101203
Gene ExpressionCOL20A1 [ NCBI-GEO ]   COL20A1 [ EBI - ARRAY_EXPRESS ]   COL20A1 [ SEEK ]   COL20A1 [ MEM ]
Gene Expression Viewer (FireBrowse)COL20A1 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevestigatorExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)57642
GTEX Portal (Tissue expression)COL20A1
Human Protein AtlasENSG00000101203-COL20A1 [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ9P218   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ9P218  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ9P218
Splice isoforms : SwissVarQ9P218
PhosPhoSitePlusQ9P218
Domaine pattern : Prosite (Expaxy)FN3 (PS50853)    VWFA (PS50234)   
Domains : Interpro (EBI)Collagen    ConA-like_dom    FN3_dom    Ig-like_fold    Laminin_G    VWF_A   
Domain families : Pfam (Sanger)Collagen (PF01391)    fn3 (PF00041)    VWA (PF00092)   
Domain families : Pfam (NCBI)pfam01391    pfam00041    pfam00092   
Domain families : Smart (EMBL)FN3 (SM00060)  TSPN (SM00210)  VWA (SM00327)  
Conserved Domain (NCBI)COL20A1
DMDM Disease mutations57642
Blocks (Seattle)COL20A1
PDB (SRS)2DKM    2EE3    2EKJ    5KF4   
PDB (PDBSum)2DKM    2EE3    2EKJ    5KF4   
PDB (IMB)2DKM    2EE3    2EKJ    5KF4   
PDB (RSDB)2DKM    2EE3    2EKJ    5KF4   
Structural Biology KnowledgeBase2DKM    2EE3    2EKJ    5KF4   
SCOP (Structural Classification of Proteins)2DKM    2EE3    2EKJ    5KF4   
CATH (Classification of proteins structures)2DKM    2EE3    2EKJ    5KF4   
SuperfamilyQ9P218
Human Protein Atlas [tissue]ENSG00000101203-COL20A1 [tissue]
Peptide AtlasQ9P218
HPRD17215
IPIIPI00220445   IPI00414102   IPI00414583   IPI00384575   IPI00955940   
Protein Interaction databases
DIP (DOE-UCLA)Q9P218
IntAct (EBI)Q9P218
FunCoupENSG00000101203
BioGRIDCOL20A1
STRING (EMBL)COL20A1
ZODIACCOL20A1
Ontologies - Pathways
QuickGOQ9P218
Ontology : AmiGOextracellular region  collagen trimer  extracellular space  endoplasmic reticulum lumen  extracellular matrix  
Ontology : EGO-EBIextracellular region  collagen trimer  extracellular space  endoplasmic reticulum lumen  extracellular matrix  
NDEx NetworkCOL20A1
Atlas of Cancer Signalling NetworkCOL20A1
Wikipedia pathwaysCOL20A1
Orthology - Evolution
OrthoDB57642
GeneTree (enSembl)ENSG00000101203
Phylogenetic Trees/Animal Genes : TreeFamCOL20A1
HOVERGENQ9P218
HOGENOMQ9P218
Homologs : HomoloGeneCOL20A1
Homology/Alignments : Family Browser (UCSC)COL20A1
Gene fusions - Rearrangements
Tumor Fusion PortalCOL20A1
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerCOL20A1 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)COL20A1
dbVarCOL20A1
ClinVarCOL20A1
1000_GenomesCOL20A1 
Exome Variant ServerCOL20A1
ExAC (Exome Aggregation Consortium)ENSG00000101203
GNOMAD BrowserENSG00000101203
Genetic variants : HAPMAP57642
Genomic Variants (DGV)COL20A1 [DGVbeta]
DECIPHERCOL20A1 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisCOL20A1 
Mutations
ICGC Data PortalCOL20A1 
TCGA Data PortalCOL20A1 
Broad Tumor PortalCOL20A1
OASIS PortalCOL20A1 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICCOL20A1  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDCOL20A1
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 COL20A1
DgiDB (Drug Gene Interaction Database)COL20A1
DoCM (Curated mutations)COL20A1 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)COL20A1 (select a term)
intoGenCOL20A1
Cancer3DCOL20A1(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM
Orphanet
DisGeNETCOL20A1
MedgenCOL20A1
Genetic Testing Registry COL20A1
NextProtQ9P218 [Medical]
TSGene57642
GENETestsCOL20A1
Target ValidationCOL20A1
Huge Navigator COL20A1 [HugePedia]
snp3D : Map Gene to Disease57642
BioCentury BCIQCOL20A1
ClinGenCOL20A1
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD57642
Chemical/Pharm GKB GenePA142672086
Clinical trialCOL20A1
Miscellaneous
canSAR (ICR)COL20A1 (select the gene name)
Probes
Litterature
PubMed7 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineCOL20A1
EVEXCOL20A1
GoPubMedCOL20A1
iHOPCOL20A1
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 Nov 21 13:41:19 CET 2017

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