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CAPN9 (calpain 9)

Identity

Alias_namescalpain 9 (nCL-4)
Alias_symbol (synonym)nCL-4
GC36
Other alias
HGNC (Hugo) CAPN9
LocusID (NCBI) 10753
Atlas_Id 910
Location 1q42.2  [Link to chromosome band 1q42]
Location_base_pair Starts at 230747384 and ends at 230801772 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)CAPN9   1486
Cards
Entrez_Gene (NCBI)CAPN9  10753  calpain 9
AliasesGC36; nCL-4
GeneCards (Weizmann)CAPN9
Ensembl hg19 (Hinxton)ENSG00000135773 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000135773 [Gene_View]  ENSG00000135773 [Sequence]  chr1:230747384-230801772 [Contig_View]  CAPN9 [Vega]
ICGC DataPortalENSG00000135773
TCGA cBioPortalCAPN9
AceView (NCBI)CAPN9
Genatlas (Paris)CAPN9
WikiGenes10753
SOURCE (Princeton)CAPN9
Genetics Home Reference (NIH)CAPN9
Genomic and cartography
GoldenPath hg38 (UCSC)CAPN9  -     chr1:230747384-230801772 +  1q42.2   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)CAPN9  -     1q42.2   [Description]    (hg19-Feb_2009)
EnsemblCAPN9 - 1q42.2 [CytoView hg19]  CAPN9 - 1q42.2 [CytoView hg38]
Mapping of homologs : NCBICAPN9 [Mapview hg19]  CAPN9 [Mapview hg38]
OMIM606401   
Gene and transcription
Genbank (Entrez)AB038463 AF022799 AK298024 AK309039 AK313629
RefSeq transcript (Entrez)NM_001319676 NM_006615 NM_016452
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)CAPN9
Cluster EST : UnigeneHs.498021 [ NCBI ]
CGAP (NCI)Hs.498021
Alternative Splicing GalleryENSG00000135773
Gene ExpressionCAPN9 [ NCBI-GEO ]   CAPN9 [ EBI - ARRAY_EXPRESS ]   CAPN9 [ SEEK ]   CAPN9 [ MEM ]
Gene Expression Viewer (FireBrowse)CAPN9 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevestigatorExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)10753
GTEX Portal (Tissue expression)CAPN9
Human Protein AtlasENSG00000135773-CAPN9 [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtO14815   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtO14815  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProO14815
Splice isoforms : SwissVarO14815
Catalytic activity : Enzyme3.4.22.- [ Enzyme-Expasy ]   3.4.22.-3.4.22.- [ IntEnz-EBI ]   3.4.22.- [ BRENDA ]   3.4.22.- [ KEGG ]   
PhosPhoSitePlusO14815
Domaine pattern : Prosite (Expaxy)CALPAIN_CAT (PS50203)    EF_HAND_1 (PS00018)    EF_HAND_2 (PS50222)    THIOL_PROTEASE_CYS (PS00139)   
Domains : Interpro (EBI)C2_III    Calpain_cysteine_protease    Calpain_domain_III    Calpain_III    Calpain_III_sf    CAPN9    EF-hand-dom_pair    EF_Hand_1_Ca_BS    EF_hand_dom    Pept_cys_AS    Peptidase_C2_calpain_cat   
Domain families : Pfam (Sanger)Calpain_III (PF01067)    EF-hand_8 (PF13833)    Peptidase_C2 (PF00648)   
Domain families : Pfam (NCBI)pfam01067    pfam13833    pfam00648   
Domain families : Smart (EMBL)calpain_III (SM00720)  CysPc (SM00230)  EFh (SM00054)  
Conserved Domain (NCBI)CAPN9
DMDM Disease mutations10753
Blocks (Seattle)CAPN9
PDB (RSDB)1ZIV    2P0R   
PDB Europe1ZIV    2P0R   
PDB (PDBSum)1ZIV    2P0R   
PDB (IMB)1ZIV    2P0R   
Structural Biology KnowledgeBase1ZIV    2P0R   
SCOP (Structural Classification of Proteins)1ZIV    2P0R   
CATH (Classification of proteins structures)1ZIV    2P0R   
SuperfamilyO14815
Human Protein Atlas [tissue]ENSG00000135773-CAPN9 [tissue]
Peptide AtlasO14815
HPRD05909
IPIIPI00009063   IPI00016919   IPI00448880   
Protein Interaction databases
DIP (DOE-UCLA)O14815
IntAct (EBI)O14815
FunCoupENSG00000135773
BioGRIDCAPN9
STRING (EMBL)CAPN9
ZODIACCAPN9
Ontologies - Pathways
QuickGOO14815
Ontology : AmiGOcalcium-dependent cysteine-type endopeptidase activity  calcium ion binding  cellular_component  cytoplasm  proteolysis  digestion  
Ontology : EGO-EBIcalcium-dependent cysteine-type endopeptidase activity  calcium ion binding  cellular_component  cytoplasm  proteolysis  digestion  
NDEx NetworkCAPN9
Atlas of Cancer Signalling NetworkCAPN9
Wikipedia pathwaysCAPN9
Orthology - Evolution
OrthoDB10753
GeneTree (enSembl)ENSG00000135773
Phylogenetic Trees/Animal Genes : TreeFamCAPN9
HOGENOMO14815
Homologs : HomoloGeneCAPN9
Homology/Alignments : Family Browser (UCSC)CAPN9
Gene fusions - Rearrangements
Fusion : QuiverCAPN9
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerCAPN9 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)CAPN9
dbVarCAPN9
ClinVarCAPN9
1000_GenomesCAPN9 
Exome Variant ServerCAPN9
ExAC (Exome Aggregation Consortium)ENSG00000135773
GNOMAD BrowserENSG00000135773
Varsome BrowserCAPN9
Genetic variants : HAPMAP10753
Genomic Variants (DGV)CAPN9 [DGVbeta]
DECIPHERCAPN9 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisCAPN9 
Mutations
ICGC Data PortalCAPN9 
TCGA Data PortalCAPN9 
Broad Tumor PortalCAPN9
OASIS PortalCAPN9 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICCAPN9  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDCAPN9
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 CAPN9
DgiDB (Drug Gene Interaction Database)CAPN9
DoCM (Curated mutations)CAPN9 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)CAPN9 (select a term)
intoGenCAPN9
Cancer3DCAPN9(select the gene name)
Impact of mutations[PolyPhen2] [Provean] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM606401   
Orphanet
DisGeNETCAPN9
MedgenCAPN9
Genetic Testing Registry CAPN9
NextProtO14815 [Medical]
TSGene10753
GENETestsCAPN9
Target ValidationCAPN9
Huge Navigator CAPN9 [HugePedia]
snp3D : Map Gene to Disease10753
BioCentury BCIQCAPN9
ClinGenCAPN9
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD10753
Chemical/Pharm GKB GenePA26066
Clinical trialCAPN9
Miscellaneous
canSAR (ICR)CAPN9 (select the gene name)
DataMed IndexCAPN9
Probes
Litterature
PubMed16 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineCAPN9
EVEXCAPN9
GoPubMedCAPN9
iHOPCAPN9
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Thu Feb 14 16:21:12 CET 2019
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