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Category   Symbol Source: HGNC EntrezGene Ensembl GeneCards RNA genes CroW21
GIFtS

CAPN9 Gene

protein-coding   GIFtS: 61
GCID: GC01P230883

Calpain 9

(Previous name: calpain 9 (nCL-4))
Alzheimer's & Parkinson's Diseases Congress
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(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, 10fRNAdb, 12H-InvDB, 13NCBI, 14NONCODE, and/or 15RNAdb)
About This Section

Aliases
Calpain 91 2     calpain-92
Novel Calpain Large Subunit-41 2     EC 3.4.22.-3
Digestive Tract-Specific Calpain2 3     NCL43
New Calpain 42 3     Protein CG363
nCL-42 3     EC 3.4.228
Calpain 9 (NCL-4)1     EC 3.4.22.548
GC362     

External Ids:    HGNC: 14861   Entrez Gene: 107532   Ensembl: ENSG000001357737   OMIM: 6064015   UniProtKB: O148153   

Export aliases for CAPN9 gene to outside databases

Previous GC identifers: GC01P229360 GC01P226611 GC01P227356 GC01P227918 GC01P227189 GC01P228949 GC01P201367


(According to Entrez Gene, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
About This Section

Entrez Gene summary for CAPN9 Gene:
Calpains are ubiquitous, well-conserved family of calcium-dependent, cysteine proteases. The calpain proteins are
heterodimers consisting of an invariant small subunit and variable large subunits. The large subunit possesses a
cysteine protease domain, and both subunits possess calcium-binding domains. Calpains have been implicated in
neurodegenerative processes, as their activation can be triggered by calcium influx and oxidative stress. The
protein encoded by this gene is expressed predominantly in stomach and small intestine and may have specialized
functions in the digestive tract. This gene is thought to be associated with gastric cancer. Multiple
alternatively spliced transcript variants encoding different isoforms have been found for this gene. (provided by
RefSeq, Jul 2008)

GeneCards Summary for CAPN9 Gene: 
CAPN9 (calpain 9) is a protein-coding gene. Diseases associated with CAPN9 include gastric cancer, and muscular dystrophy, and among its related super-pathways are nNOS Signaling in Skeletal Muscle and Integrin Pathway. GO annotations related to this gene include calcium-dependent cysteine-type endopeptidase activity and calcium ion binding. An important paralog of this gene is CAPN6.

UniProtKB/Swiss-Prot: CAN9_HUMAN, O14815
Function: Calcium-regulated non-lysosomal thiol-protease

summary for CAPN9 Gene:
Calpains are a group of calcium-sensitive cysteine proteases that are ubiquitously expressed in mammals.
This family contains 14 members with mu-calpain (calpain 1) and m-calpain (calpain 2) being the most
well-characterized. Structurally, calpains contain two subunits; an 80 kDa catalytic subunit and a 28 kDa
regulatory subunit that functions as a chaperone to stabilize the 80 kDa structure. Calpains are regulated
by Ca2+ concentration, phosphorylation, calpastatin and probably by altering their subcellular localization
(limiting access to substrate). These endopeptidases have numerous functions including, but not limited to,
remodeling of cytoskeletal attachments to the plasma membrane during cell fusion and cell motility,
proteolytic modification of molecules in signal transduction pathways, degradation of enzymes controlling
progression through the cell cycle, regulation of gene expression, substrate degradation in some apoptotic
pathways, and an involvement in long-term potentiation. Perturbations in calpain activity have been
associated in pathophysiological processes contributing to type II diabetes (calpain 10), Alzheimer's
disease (calpain 1), gastric cancer (calpain 9) and muscular dystrophy (calpain 3).

Gene Wiki entry for CAPN9 Gene


(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 37),
and/or miRBase,
Genomic Views according to UCSC (hg19) and Ensembl (release 73), Regulatory elements and Epigenetics data according to QIAGEN, SABiosciences, and/or SwitchGear Genomics)
About This Section
RefSeq DNA sequence:
NC_000001.10  NT_167186.1  NC_018912.2  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the CAPN9 gene promoter:
         PPAR-gamma1   AML1a   deltaCREB   PPAR-gamma2   Roaz   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidCAPN9 promoter sequence
   Search SABiosciences Chromatin IP Primers for CAPN9

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat CAPN9


Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track

Entrez Gene cytogenetic band: 1q42.11-q42.3   Ensembl cytogenetic band:  1q42.2   HGNC cytogenetic band: 1q42.11-q42.3

CAPN9 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
CAPN9 gene location

GeneLoc information about chromosome 1         GeneLoc Exon Structure

GeneLoc location for GC01P230883:  view genomic region     (about GC identifiers)

Start:
230,883,130 bp from pter      End:
230,937,749 bp from pter
Size:
54,620 bases      Orientation:
plus strand

(According to UniProtKB, HORDE, neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MAXQB RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from EMD Millipore, R&D Systems, GenScript, Enzo Life Sciences, OriGene, Novus Biologicals, Sino Biological, ProSpec, and/or Cloud-Clone Corp.,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Cloud-Clone Corp., Ontologies according to Gene Ontology Consortium 01 Oct 2013 and Entrez Gene, Antibodies by EMD Millipore, R&D Systems, GenScript, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, and/or Cloud-Clone Corp.)
About This Section

UniProtKB/Swiss-Prot: CAN9_HUMAN, O14815 (See protein sequence)
Recommended Name: Calpain-9  
Size: 690 amino acids; 79097 Da
2 PDB 3D structures from and Proteopedia for CAPN9:
1ZIV (3D)        2P0R (3D)    
Secondary accessions: B1APS1 B1AQI0 Q9NS74
Alternative splicing: 2 isoforms:  O14815-1   O14815-2   

Explore the universe of human proteins at neXtProt for CAPN9: NX_O14815

Explore proteomics data for CAPN9 at MOPED 

Post-translational modifications:

  • View modification sites using PhosphoSitePlus
  • View neXtProt modification sites for NX_O14815

  • 4/14 DME Specific Peptides for CAPN9 (O14815) (see all 14)
     YAGIFHF  FINLREV  RTDICQG  GATRTDI 

    CAPN9 Protein expression data from MOPED1, PaxDb2 and MAXQB3 :    About this image 

    CAPN9 Protein Expression
    REFSEQ proteins (2 alternative transcripts): 
    NP_006606.1  NP_057536.1  

    ENSEMBL proteins: 
     ENSP00000271971   ENSP00000346538   ENSP00000355626  

    Human Recombinant Protein Products for CAPN9: 
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    GenScript Custom Purified and Recombinant Proteins Services for CAPN9
    Novus Biologicals CAPN9 Protein
    Novus Biologicals CAPN9 Lysate
    Browse Sino Biological Recombinant Proteins
    Browse Sino Biological Cell Lysates 
    Browse ProSpec Recombinant Proteins
    Cloud-Clone Corp. Proteins for CAPN9 

    Gene Ontology (GO): 2 cellular component terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005575cellular_component ND--
    GO:0005622intracellular IEA--

    CAPN9 for ontologies           About GeneDecksing



    CAPN9 Antibody Products: 
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    ThermoFisher Antibodies for CAPN9
    LSBio Antibodies in human, mouse, rat for CAPN9 

    Assay Products for CAPN9: 
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    Cloud-Clone Corp. ELISAs for CAPN9 
    Cloud-Clone Corp. CLIAs for CAPN9


    (According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
    About This Section
    HGNC Gene Families: 
    EFHAND: EF-hand domain containing

    5/8 InterPro protein domains (see all 8):
     IPR011992 EF-hand-like_dom
     IPR002048 EF_hand_dom
     IPR001300 Peptidase_C2_calpain_cat
     IPR018247 EF_Hand_1_Ca_BS
     IPR000169 Pept_cys_AS

    Graphical View of Domain Structure for InterPro Entry O14815

    ProtoNet protein and cluster: O14815

    1 Blocks protein domain: IPB001300 Calpain cysteine protease (C2) family signature

    UniProtKB/Swiss-Prot: CAN9_HUMAN, O14815
    Similarity: Belongs to the peptidase C2 family
    Similarity: Contains 1 calpain catalytic domain
    Similarity: Contains 3 EF-hand domains


    CAPN9 for domains           About GeneDecksing


    (According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, inGenious Targeting Laboratory, genOway,
    bound targets from SABiosciences, miRNA Gene Targets from miRTarBase, shRNA from OriGene, RNAi from EMD Millipore, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, Gene Editing from DNA2.0, Sirion Biotech, Clones from EMD Millipore, OriGene, SwitchGear Genomics, GenScript, Sino Biological, DNA2.0, Vector BioLabs, and Sirion Biotech, Cell Lines from GenScript, LifeMap BioReagents, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Oct 2013 via Entrez Gene.)
    About This Section

    Molecular Function:

         UniProtKB/Swiss-Prot Summary: CAN9_HUMAN, O14815
    Function: Calcium-regulated non-lysosomal thiol-protease
    Catalytic activity: Broad endopeptidase specificity
    Induction: Down-regulated in gastric cancer tissue and in gastric cell lines of differentiated and poorly
    differentiated types

         Enzyme Numbers (IUBMB): EC 3.4.22.542 EC 3.4.222 EC 3.4.22.-1

         Gene Ontology (GO): 2 molecular function terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0004198calcium-dependent cysteine-type endopeptidase activity IEA--
    GO:0005509calcium ion binding IEA--
         
    CAPN9 for ontologies           About GeneDecksing


    Phenotypes:
         3 GenomeRNAi human phenotypes for CAPN9:
     Downregulation of NF-kappaB pa  Downregulation of NF-kappaB pa  Increased gamma-H2AX phosphory 

         2 MGI mutant phenotypes (inferred from 1 allele(MGI details for Capn9):
     digestive/alimentary  homeostasis/metabolism 

    CAPN9 for phenotypes           About GeneDecksing

    Animal Models:
         MGI mouse knock-out Capn9tm1Hiso for CAPN9

       inGenious Targeting Laboratory - Custom generated mouse model solutions for CAPN9 
       inGenious Targeting Laboratory - Custom generated inducible mouse model solutions for CAPN9

       genOway customized KO model: permanent, tissue-specific or time-controlled inactivation for CAPN9 
       genOway customized Knockin model: humanization, point mutation, expression monitoring, etc. for CAPN9 

    miRNA
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    QIAGEN Custom miScript Target Protector blocks miRNA-binding site of human, mouse, rat CAPN9
    2 QIAGEN miScript miRNA Assays for microRNAs that regulate CAPN9:
    hsa-miR-520d-5p hsa-miR-524-5p
    SwitchGear 3'UTR luciferase reporter plasmidCAPN9 3' UTR sequence
    Inhib. RNA
    Products:
        
    Browse for Gene Knock-down Tools from EMD Millipore
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    Gene Editing
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    Browse Sino Biological Human cDNA Clones
    DNA2.0 Custom Codon Optimized Gene Synthesis Service for CAPN9
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                         Customized lentivirus expression plasmids for stable overexpression of CAPN9 

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    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for CAPN9


    (Pathways according to EMD Millipore, R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Sino Biological, Reactome, Tocris Bioscience, GeneGo (Thomson Reuters), QIAGEN, and/or UniProtKB, Sets of similar genes according to GeneDecks, Interaction Networks according to SABiosciences, and/or STRING, Interactions according to 1UniProtKB, 2MINT, 3I2D, and/or 4STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Oct 2013 via Entrez Gene).
    About This Section

    SuperPaths for CAPN9 About                                                                                                See pathways by source

    SuperPathContained pathways About
    1DREAM Repression and Dynorphin Expression
    nNOS Signaling in Skeletal Muscle0.37
    Calpain Protease Regulates Cellular Mechanics0.31
    Caspase Cascade0.36
    2Integrin Pathway
    FAK1 Signaling0.67
    3Rho Family GTPases
    ERK Signaling0.61
    4Apoptosis Pathway
    Apoptosis Pathway0.45
    5Focal Adhesion
    Integrin-mediated cell adhesion0.38

    Pathways by source                                                                                                                                                                 See SuperPaths
    Show all pathways

    5 Downloadable PowerPoint Slides of QIAGEN Pathway Central Maps for CAPN9
        Caspase Cascade
    ERK Signaling
    Calpain Protease Regulates Cellular Mechanics
    FAK1 Signaling
    nNOS Signaling in Skeletal Muscle

    1 Tocris Bioscience Pathway for CAPN9
        Apoptosis Pathway

    1 BioSystems Pathway for CAPN9
        Integrin-mediated cell adhesion


    Interactions:

        Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for CAPN9

    STRING Interaction Network Preview (showing 1 interactants - click image to see more details)

    1 Interacting protein for CAPN9 (ENSP000002719714) via UniProtKB, MINT, STRING, and/or I2D
    InteractantInteraction Details
    GeneCardExternal ID(s)
    SHBGENSP000003698164STRING: ENSP00000369816
    About this table

    Gene Ontology (GO): 2 biological process terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0006508proteolysis IEA--
    GO:0007586digestion TAS9524069

    CAPN9 for ontologies           About GeneDecksing



    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB, with drugs/clinical trials/news search links to CenterWatch)
    About This Section

    CAPN9 for compounds           About GeneDecksing

    EMD Millipore small molecules for CAPN9:
    Small Molecule - inhibitor
    Browse drugs & compounds from Enzo Life Sciences

    Compounds for CAPN9 available from Tocris Bioscience    About this table
    CompoundAction CAS #
    Acetyl-Calpastatin (184-210) (human)Selective calpain inhibitor[123714-50-1]
    MDL 28170 Potent, selective calpain and cathepsin B inhibitor [88191-84-8]
    PD 150606Cell permeable calpain inhibitor[179528-45-1]
    MG 132Proteasome and calpain inhibitor. Inhibits NF-kappaB activation[133407-82-6]
    MG 101Calpain inhibitor; activates p53-dependent apoptosis[110044-82-1]

    1 HMDB Compound for CAPN9    About this table
    CompoundSynonyms CAS #PubMed Ids
    CalciumCa (see all 2)7440-70-2--

    1 Novoseek inferred chemical compound relationship for CAPN9 gene    About this table
    Compound   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
    calcium 8.92 9 9917325 (1)

    Search CenterWatch for drugs/clinical trials and news about CAPN9 / CAN9

    (Secondary structures according to fRNAdb,
    GenBank/EMBL/DDBJ Accessions according to
    Unigene (Build 236 Homo sapiens; Apr 25 2013) or GenBank,
    RefSeq according to Entrez Gene,
    DOTS (version 10), and/or AceView, transcript ids from Ensembl with links to UCSC,
    Conferences by KenesGroup, exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
    RNAi Products from EMD Millipore,
    siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN,
    Tagged/untagged cDNA clones from OriGene, SwitchGear Genomics, GenScript, DNA2.0, Vector BioLabs, Sirion Biotech, Primers from OriGene, SABiosciences, and/or QIAGEN )
    About This Section

    REFSEQ mRNAs for CAPN9 gene (2 alternative transcripts): 
    NM_006615.2  NM_016452.1  

    Unigene Cluster for CAPN9:

    Calpain 9
    Hs.498021  [show with all ESTs]
    Unigene Representative Sequence: AB038463
    4 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000271971 ENST00000354537(uc001htz.1 uc001hua.1 uc009xfg.1)
    ENST00000480004 ENST00000366666

    miRNA
    Products:
         
    QIAGEN Custom miScript Target Protector blocks miRNA-binding site of human, mouse, rat CAPN9
    2 QIAGEN miScript miRNA Assays for microRNAs that regulate CAPN9:
    hsa-miR-520d-5p hsa-miR-524-5p
    SwitchGear 3'UTR luciferase reporter plasmidCAPN9 3' UTR sequence
    Inhib. RNA
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    GenScript: all cDNA clones in your preferred vector (see all 2): CAPN9 (NM_006615)
    DNA2.0 Custom Codon Optimized Gene Synthesis Service for CAPN9
    Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat CAPN9
    Sirion Biotech Customized lentivirus for stable overexpression of CAPN9 
                         Customized lentivirus expression plasmids for stable overexpression of CAPN9 
    Primer
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    OriGene qPCR primer pairs and template standards for CAPN9
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    SABiosciences RT2 qPCR Primer Assay in human, mouse, rat CAPN9
      QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat CAPN9
      QIAGEN QuantiFast Probe-based Assays in human, mouse, rat CAPN9

    Additional mRNA sequence: 

    AB038463.1 AF022799.1 AK298024.1 AK309039.1 AK313629.1 BC027993.1 

    6 DOTS entries:

    DT.95157981  DT.75139514  DT.97775099  DT.40122120  DT.121461251  DT.320301 

    17 AceView cDNA sequences:

    NM_006615 AF022799 BC027993 AB038463 AA330385 AI733427 BM747642 CD692048 
    BI523925 BX956884 BI818092 CF139910 BM987591 BI524673 AI074272 BM749637 
    AI870462 

    GeneLoc Exon Structure

    5/8 Alternative Splicing Database (ASD) splice patterns (SP) for CAPN9 (see all 8)    About this scheme

    ExUns: 1a · 1b · 1c ^ 2 ^ 3 ^ 4 ^ 5 ^ 6 ^ 7 ^ 8 ^ 9 ^ 10a · 10b ^ 11 ^ 12a · 12b ^ 13 ^ 14 ^ 15 ^ 16a · 16b ^ 17 ^ 18a · 18b ^ 19 ^ 20 ^
    SP1:                    -                                               -                                                                       -               
    SP2:                    -                                         -     -                                                                       -               
    SP3:                    -     -     -                                   -                                                                       -               
    SP4:                                                                                                              -                                             
    SP5:                                                                                                                                            -           -   

    ExUns: 21a · 21b · 21c
    SP1:                  
    SP2:                  
    SP3:                  
    SP4:                  
    SP5:                  


    ECgene alternative splicing isoforms for CAPN9

    (RNA expression data according to H-InvDB, NONCODE, miRBase, and RNAdb, Expression images according to data from BioGPS, Illumina Human BodyMap, and CGAP SAGE, Sets of similar genes according to GeneDecks, in vivo and in vitro expression data from LifeMap Discovery™, plus additional links to Genevestigator, and/or SOURCE, and/or BioGPS, and/or UniProtKB,
    PCR Arrays from SABiosciences, Primers from OriGene, SABiosciences, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
    About This Section

    CAPN9 expression in normal human tissues (normalized intensities)      CAPN9 embryonic expression: see
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: TCTACCTATG
    CAPN9 Expression
    About this image


    CAPN9 expression in embryonic tissues and stem cells    About this table
    Data from LifeMap, the Embryonic Development and Stem Cells Database 
     5/9 selected tissues (see all 9) fully expand
     
     Colon (Gastrointestinal Tract)    fully expand to see all 2 entries
             rectum ; glandular cells   
     
     Intestine (Gastrointestinal Tract)    fully expand to see all 2 entries
             small intestine ; glandular cells   
     
     Skeletal Muscle (Muscoskeletal System)    fully expand to see all 2 entries
             Mononuclear Myocytes Hyoid Arch Muscles
     
     Stomach (Gastrointestinal Tract)    fully expand to see all 2 entries
             stomach, upper ; glandular cells   
     
     Melanocytes (Integumentary System)
             skin ; melanocytes   

    See CAPN9 Protein Expression from SPIRE MOPED and PaxDB
    Genevestigator expression for CAPN9

    SOURCE GeneReport for Unigene cluster: Hs.498021

    UniProtKB/Swiss-Prot: CAN9_HUMAN, O14815
    Tissue specificity: Expressed predominantly in stomach

        SABiosciences Custom PCR Arrays for CAPN9
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    QIAGEN QuantiFast Probe-based Assays in human, mouse, rat CAPN9
    In Situ
    Assay Products:
     

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for CAPN9

    (Orthologs according to 1,2HomoloGene (2older version, for species not in 1newer version), 3euGenes, 4SGD , 5MGI Mar 06 2013, with possible further links to Flybase and/or WormBase, and/or 6Ensembl pan taxonomic compara , Gene Trees according to Ensembl and TreeFam)
    About This Section

    This gene was present in the common ancestor of animals.

    Orthologs for CAPN9 gene from 7/15 species (see all 15)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Capn91 , 5 calpain 91, 5 83.24(n)1
    85.8(a)1
      8 (72.81 cM)5
    736471  NM_023709.41  NP_076198.21 
     1245761115 
    chicken
    (Gallus gallus)
    Aves CAPN91 calpain 9 75.75(n)
    79.28(a)
      421544  XM_419585.3  XP_419585.2 
    lizard
    (Anolis carolinensis)
    Reptilia CAPN96
    Uncharacterized protein
    77(a)
    1 ↔ 1
    1(222849579-222886409)
    tropical clawed frog
    (Xenopus tropicalis)
    Amphibia Str.24592 Transcribed sequence with moderate similarity to protein more 72.63(n)    CF224666.1 
    zebrafish
    (Danio rerio)
    Actinopterygii capn92 calpain 9 75.69(n)   114400  CK015810.1 
    fruit fly
    (Drosophila melanogaster)
    Insecta CalpA1 , 3 actin cytoskeleton organization and
    biogenesis more3
    Calpain-A1
    51(a)
    (best of 3)3
    54.05(n)1
    49.39(a)1
      56D53
    372321  NM_057699.41  NP_477047.11 
    worm
    (Caenorhabditis elegans)
    Secernentea clp-73   -- 47(a)
    (best of 3)
      IV(1435632-1445971)   --


    ENSEMBL Gene Tree for CAPN9 (if available)
    TreeFam Gene Tree for CAPN9 (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
    Paralogs for CAPN9 gene
    CAPN62  CAPN82  CAPN142  CAPNS12  CAPN132  CAPN12  CAPN52  CAPNS22  
    CAPN22  CAPN32  CAPN122  CAPN112  CAPN102  
    14 SIMAP similar genes for CAPN9 using alignment to 3 protein entries:     CAN9_HUMAN (see all proteins):
    CAPN1    CAPN2    CAPNS1    CAPN11    CAPNS2    CAPN3
    CAPN8    CAPN14    CAPN12    CAPN5    SRI    CAPN6
    CAPN13    GCA

    CAPN9 for paralogs           About GeneDecksing



    (SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, 4UniProtKB, and DNA2.0, Linkage Disequilibrium by HapMap, Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Mutations from the Human Gene Mutation Database (HGMD) and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers from QIAGEN, Cancer Mutation PCR Arrays and Assays and Copy Number PCR Arrays from SABiosciences)
    About This Section

    10/1713 SNPs in CAPN9 are shown (see all 1713)    About this table     
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 1 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs1905886461,2
    --230881174(+) GAAAAC/TTGGGA 2 -- us2k10--------
    rs802469361,2
    C,F--230881330(+) TTTCTG/TGTTCC 2 -- us2k15Minor allele frequency- T:0.08NA CSA WA EA 362
    rs1830828061,2
    --230881350(+) ACATGA/GTGGAA 2 -- us2k10--------
    rs583458861,2
    C--230881417(+) GAGGGC/TTCCAC 2 -- us2k14Minor allele frequency- T:0.12WA NA EA 360
    rs727606271,2
    C,F--230881422(+) CTCCAC/TTCTTC 2 -- us2k11Minor allele frequency- T:0.07NA 120
    rs283595651,2
    C,F--230881492(+) TTCAAC/AATACA 2 -- us2k112Minor allele frequency- A:0.15NS NA WA EA 1080
    rs283595661,2
    C,F--230881512(+) GGGGTC/G/TGGGGG 2 -- us2k14NS WA NA 186
    rs2013265421,2
    --230881512(+) GGGGT-/CGGGGG 2 -- us2k10--------
    rs283595681,2
    C,F--230881526(+) GGTGCG/AGAATA 2 -- us2k11Minor allele frequency- A:0.01NS 180
    rs168525351,2
    C,F,H--230881658(+) CCTGGG/AAACTG 2 -- us2k130Minor allele frequency- A:0.36NA NS EA WA CSA 2182

    HapMap Linkage Disequilibrium report for CAPN9 (230883130 - 230937749 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 1 variation for CAPN9:    About this table     
    Variant IDTypeSubtypePubMed ID
    nsv832836CNV Loss17160897

    SABiosciences Cancer Mutation PCR Assays
    SeqTarget long-range PCR primers for resequencing CAPN9
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    (in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Conferences by KenesGroup, Novoseek, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
    About This Section
    OMIM gene information: 606401    OMIM disorders: --

    8 diseases for CAPN9:    About MalaCards
    gastric cancer    muscular dystrophy    alzheimer's disease    esophageal adenocarcinoma
    chronic lymphocytic leukemia    esophagitis    adenocarcinoma    leukemia


    CAPN9 for disorders           About GeneDecksing


    Congresses - knowledge worth sharing:  
    Alzheimer's & Parkinson's Diseases Congress (ADPD) 18 - 22 March 2015

    2 Novoseek inferred disease relationships for CAPN9 gene    About this table

    Disease   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
    gastric cancer 51.2 4 11516996 (1), 10835488 (1), 17157313 (1)
    alzheimers disease 28 1 17157313 (1)

    Genetic Association Database (GAD): CAPN9
    Human Genome Epidemiology (HuGE) Navigator: CAPN9 (4 documents)

    Export disorders for CAPN9 gene to outside databases

    (in PubMed. Associations of this gene to articles via 1Entrez Gene, 2UniProtKB/Swiss-Prot, 3HGNC, 4GAD, 5PharmGKB, 6HMDB, 7DrugBank, 8UniProtKB/TrEMBL, 9 Novoseek, and/or 10fRNAdb)
    About This Section

    PubMed articles for CAPN9 gene, integrated from 9 sources (see all 13):
    (articles sorted by number of sources associating them with CAPN9)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Isolation of two novel genes, down-regulated in gastric cancer. (PubMed id 10835488)1, 2, 3, 9 Yoshikawa Y.... Kato I. (2000)
    2. Molecular cloning and characterization of a novel tissue-specific calpain predominantly expressed in the digestive tract. (PubMed id 9524069)1, 2, 3 Lee H.-J.... Suzuki K. (1998)
    3. The crystal structures of human calpains 1 and 9 imply diverse mechanisms of action and auto-inhibition. (PubMed id 17157313)1, 2, 9 Davis T.L....Dhe-Paganon S. (2007)
    4. Personalized smoking cessation: interactions between nicotine dose, dependence and quit-success genotype score. (PubMed id 20379614)1, 4 Rose J.E....Uhl G.R. (2010)
    5. A Large-scale genetic association study of esophageal adenocarcinoma risk. (PubMed id 20453000)1, 4 Liu C.Y....Christiani D.C. (2010)
    6. Genetic variants in apoptosis and immunoregulation-related genes are associated with risk of chronic lymphocytic leukemia. (PubMed id 19074885)1, 4 Enjuanes A....Campo E. (2008)
    7. Characterization of a human digestive tract-specific calpain, nCL-4, expressed in the baculovirus system. (PubMed id 9917325)1, 9 Lee H.J....Suzuki K. (1999)
    8. The calpain family and human disease. (PubMed id 11516996)1, 9 Huang Y. and Wang K.K. (2001)
    9. A genome-wide association study provides evidence for association of chromosome 8p23 (MYP10) and 10q21.1 (MYP15) with high myopia in t he French Population. (PubMed id 23049088)1 Meng W....Malecaze F. (2012)
    10. The DNA sequence and biological annotation of human chromosome 1. (PubMed id 16710414)2 Gregory S.G.... Bentley D.R. (2006)

    (in PubMed, OMIM, and NCBI Bookshelf)
    About This Section
     ANDOR
    Aliases
    Disorders
    Free Text  

      Query String
    PubMed
    OMIM
    NCBI Bookshelf
      (Note: In FireFox, select the above section and copy using Ctrl-C)

    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
    About This Section
    Entrez Gene: 10753 HGNC: 1486 AceView: CAPN9 Ensembl:ENSG00000135773 euGenes: HUgn10753
    ECgene: CAPN9 H-InvDB: CAPN9

    (According to HUGE)
    About This Section
      --

    (According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
    Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
    About This Section
    NameDescription
    PharmGKB entry for CAPN9 Pharmacogenomics, SNPs, Pathways
    ATLAS Chromosomes in Cancer entry for CAPN9 Genetics and Cytogenetics in Oncology and Haematology
    NIEHS-SNPshttp://egp.gs.washington.edu/data/capn9/

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
    About This Section
    Patent Information for CAPN9 gene:
    Search GeneIP for patents involving CAPN9

    GeneCards and IP:
    Japan Patent Office Licenses GeneCards     European Patent Office Licenses GeneCards     Improving the IP Search



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