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APCS Gene

protein-coding   GIFtS: 64
GCID: GC01P159557

Amyloid P Component, Serum

  See related diseases
at  

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, 10fRNAdb, 12H-InvDB, 13NCBI, 14NONCODE, and/or 15RNAdb)
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Aliases
Amyloid P Component, Serum1 2     PTX22 3
9.5S Alpha-1-Glycoprotein1 2 3     HEL-S-92n2
SAP2 3 5     Epididymis Secretory Sperm Binding Protein Li 92n2
pentaxin-related1 2     Serum Amyloid P-Component2

External Ids:    HGNC: 5841   Entrez Gene: 3252   Ensembl: ENSG000001327037   OMIM: 1047705   UniProtKB: P027433   

Export aliases for APCS gene to outside databases

Previous GC identifers: GC01P157349 GC01P155289 GC01P156335 GC01P156774 GC01P156370 GC01P157824 GC01P130914


(According to Entrez Gene, GeneCards, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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Entrez Gene summary for APCS Gene:
The protein encoded by this gene is a glycoprotein, belonging to the pentraxin family of proteins, which has a
characteristic pentameric organization. These family members have considerable sequence homology which is thought
to be the result of gene duplication. The binding of the encoded protein to proteins in the pathological amyloid
cross-beta fold suggests its possible role as a chaperone. This protein is also thought to control the
degradation of chromatin. It has been demonstrated that this protein binds to apoptotic cells at an early stage,
which raises the possibility that it is involved in dealing with apoptotic cells in vivo. (provided by RefSeq,
Sep 2008)

GeneCards Summary for APCS Gene:
APCS (amyloid P component, serum) is a protein-coding gene. Diseases associated with APCS include amyloidosis, secondary, and candida glabrata. GO annotations related to this gene include unfolded protein binding. An important paralog of this gene is NPTX2.

UniProtKB/Swiss-Prot: SAMP_HUMAN, P02743
Function: Can interact with DNA and histones and may scavenge nuclear material released from damaged circulating
cells. May also function as a calcium-dependent lectin

Gene Wiki entry for APCS (Serum amyloid P component) 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 75), Regulatory elements and Epigenetics data according to QIAGEN, and/or SwitchGear Genomics)
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RefSeq DNA sequence:
NC_000001.11  NC_018912.2  NT_004487.20  
Regulatory elements:
   Regulatory transcription factor binding sites in the APCS gene promoter:
         Nkx3-1   Nkx3-1 v4   Nkx3-1 v1   STAT5A   NF-E2 p45   Nkx3-1 v2   Zic1   STAT3   Nkx3-1 v3   NF-E2   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidAPCS promoter sequence
   Search Chromatin IP Primers for APCS

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat APCS


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

Entrez Gene cytogenetic band: 1q21-q23   Ensembl cytogenetic band:  1q23.2   HGNC cytogenetic band: 1q21-q23

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

GeneLoc information about chromosome 1         GeneLoc Exon Structure

GeneLoc location for GC01P159557:  view genomic region     (about GC identifiers)

Start:
159,557,615 bp from pter      End:
159,558,661 bp from pter
Size:
1,047 bases      Orientation:
plus strand

(According to 1UniProtKB, HORDE, 2neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, 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., Antibodies by EMD Millipore, R&D Systems, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, Cloud-Clone Corp, and/or others.)
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UniProtKB/Swiss-Prot: SAMP_HUMAN, P02743 (See protein sequence)
Recommended Name: Serum amyloid P-component precursor  
Size: 223 amino acids; 25387 Da
Cofactor: Binds 2 calcium ions per subunit
Subunit: Homopentamer. Pentaxin (or pentraxin) have a discoid arrangement of 5 non-covalently bound subunits
Mass spectrometry: Mass=25462.5; Mass_error=1.1; Method=Electrospray; Range=20-223; Source=PubMed:8202534;
Mass spectrometry: Mass=25463; Mass_error=3; Method=MALDI; Range=20-223; Source=PubMed:15174148;
Mass spectrometry: Mass=1285.78; Method=MALDI; Range=213-223; Source=PubMed:15174148;
Mass spectrometry: Mass=1186.71; Method=MALDI; Range=213-222; Source=PubMed:15174148;
Selected PDB 3D structures from and Proteopedia for APCS (see all 13):
1GYK (3D)        1LGN (3D)        1SAC (3D)        2A3W (3D)        2A3X (3D)        2A3Y (3D)    

Explore the universe of human proteins at neXtProt for APCS: NX_P02743

Explore proteomics data for APCS at MOPED

Post-translational modifications: 

  • N-glycosylated with a complex biantennary oligosaccharide chain with a sialic acid at the end (disialo-SAP).
    Monosialo-SAP as well as asioalo-SAP are also detected (PubMed:15174148)1
  • Glycosylation2 at Asn51
  • Modification sites at PhosphoSitePlus

  • See APCS Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

    REFSEQ proteins: NP_001630.1  
    ENSEMBL proteins: 
     ENSP00000255040  
    Reactome Protein details: P02743

    APCS Human Recombinant Protein Products:

    Browse Purified and Recombinant Proteins at EMD Millipore
    R&D Systems Recombinant & Natural Proteins for APCS (Pentraxin 2/SAP)
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    OriGene Protein Over-expression Lysate for APCS
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    Novus Biologicals APCS Proteins
    Novus Biologicals APCS Lysate
    Sino Biological Recombinant Protein for APCS
    Sino Biological Cell Lysate for APCS
    ProSpec Recombinant Protein for APCS
    Browse Proteins at Cloud-Clone Corp.

    APCS Antibody Products:

    EMD Millipore Mono- and Polyclonal Antibodies for the study of APCS
    R&D Systems Antibodies for APCS (Pentraxin 2/SAP)
    OriGene Antibodies for APCS
    OriGene Custom Antibody Services for APCS
    Novus Biologicals APCS Antibodies
    Abcam antibodies for APCS
    Browse Antibodies at Cloud-Clone Corp.
    ThermoFisher Antibodies for APCS
    LSBio Antibodies in human, mouse, rat for APCS

    APCS Assay Products:

    Browse Kits and Assays available from EMD Millipore
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    GenScript Custom Assay Services for APCS
    Browse Enzo Life Sciences for kits & assays
    Browse ELISAs at Cloud-Clone Corp.
    Browse CLIAs at Cloud-Clone Corp.


    (According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
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    3 InterPro protein domains:
     IPR013320 ConA-like_subgrp
     IPR001759 Pentaxin
     IPR008985 ConA-like_lec_gl_sf

    Graphical View of Domain Structure for InterPro Entry P02743

    ProtoNet protein and cluster: P02743

    1 Blocks protein domain: IPB001759 Pentaxin

    UniProtKB/Swiss-Prot: SAMP_HUMAN, P02743
    Similarity: Belongs to the pentaxin family
    Similarity: Contains 1 pentaxin domain


    APCS 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,
    transcription factor targeting from QIAGEN and/or HOMER, miRNA Gene Targets from miRTarBase, shRNA from OriGene, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, SwitchGear Genomics, Gene Editing from DNA2.0, Clones from OriGene, GenScript, Sino Biological, DNA2.0, and Vector BioLabs, Cell Lines from GenScript, ESI BIO, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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    Molecular Function:

         UniProtKB/Swiss-Prot Summary: SAMP_HUMAN, P02743
    Function: Can interact with DNA and histones and may scavenge nuclear material released from damaged circulating
    cells. May also function as a calcium-dependent lectin

         Genatlas biochemistry entry for APCS:
    amyloid P component,serum,pentaxin (pentraxin) family

         Gene Ontology (GO): 2 molecular function terms:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0046872metal ion binding IEA--
    GO:0051082unfolded protein binding TAS10812074
         
    APCS for ontologies           About GeneDecksing


    Phenotypes:
         1 GenomeRNAi human phenotype for APCS:
     Decreased viability of wild-ty 

         5 MGI mutant phenotypes (inferred from 2 alleles(MGI details for Apcs):
     hematopoietic system  immune system  mortality/aging  other  renal/urinary system 

    APCS for phenotypes           About GeneDecksing

    Animal Models:
         MGI mouse knock-outs for APCS: Apcstm1Mpe Apcstm1Smae

       inGenious Targeting Laboratory: Let us create your new Knockout/Knockin mouse model for APCS
       inGenious Targeting Laboratory: Contact us about creating complex and humanized mouse models for APCS

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

    miRNA
    Products:
        
    Block miRNA regulation of human, mouse, rat APCS using miScript Target Protectors
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    SwitchGear 3'UTR luciferase reporter plasmidAPCS 3' UTR sequence
    Inhib. RNA
    Products:
        
    OriGene RNAi products in human, mouse, rat for APCS
    Predesigned siRNA for gene silencing in human, mouse, rat APCS

    Gene Editing
    Products:
    DNA2.0 Custom Protein Engineering Service for APCS

    Clone
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    OriGene clones in human, mouse for APCS (see all 6)
    OriGene ORF clones in mouse, rat for APCS
    OriGene custom cloning services - gene synthesis, subcloning, mutagenesis, variant library, vector shuttling
    GenScript: all cDNA clones in your preferred vector: APCS (NM_001639)
    Sino Biological Human cDNA Clone for APCS
    DNA2.0 Custom Codon Optimized Gene Synthesis Service for APCS
    Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat APCS

    Cell Line
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    GenScript Custom overexpressing Cell Line Services for APCS
    Browse ESI BIO Cell Lines and PureStem Progenitors for APCS 
    In Situ Assay
    Products:
       

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for APCS


    (According to UniProtKB, COMPARTMENTS Subcellular localization database, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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    Subcellular locations from UniProtKB/Swiss-Prot
    SAMP_HUMAN, P02743: Secreted
    Subcellular locations from COMPARTMENTS: 

    CompartmentConfidence
    extracellular5
    nucleus2
    cytoskeleton1
    mitochondrion1
    peroxisome1

    Gene Ontology (GO): Selected cellular component terms (see all 6):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005576extracellular region TAS--
    GO:0005615extracellular space IDA--
    GO:0031012colocalizes with extracellular matrix IDA--
    GO:0043234protein complex IEA--
    GO:0070062extracellular vesicular exosome IDA19056867

    APCS for ontologies           About GeneDecksing


    (SuperPaths according to PathCards, Pathways according to 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 QIAGEN, 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 Apr 2014 via Entrez Gene).
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    SuperPaths for APCS About    
    See pathways by source

    SuperPathContained pathways About
    1RNA Polymerase I Promoter Opening
    Amyloids0.68
    2Selected targets of C EBPbeta
    Selected targets of C EBPbeta
    3Disease
    Disease

    Pathways by source                                                                                                                                                                 See SuperPaths
    Show all pathways



    1 Reactome Pathway for APCS
        Amyloids



    APCS for pathways           About GeneDecksing

        Pathway & Disease-focused RT2 Profiler PCR Arrays including APCS: 
              Innate & Adaptive Immune Responses in human mouse rat
              Inflammatory Response & Autoimmunity 384HT in human mouse rat
              Antibacterial Response in human mouse rat

    Interactions:

        GeneGlobe Interaction Network for APCS

    STRING Interaction Network Preview (showing 5 interactants - click image to see 25)

    Selected Interacting proteins for APCS (P027432, 3 ENSP000002550404) via UniProtKB, MINT, STRING, and/or I2D (see all 41)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    GOT2P005052, 3, ENSP000002452064MINT-8249003 I2D: score=2 STRING: ENSP00000245206
    HES1Q144692, 3, ENSP000002324244MINT-8249014 I2D: score=2 STRING: ENSP00000232424
    C4BPAP040033, ENSP000003560374I2D: score=2 STRING: ENSP00000356037
    CALUO438523, ENSP000002493644I2D: score=2 STRING: ENSP00000249364
    FCGR3AP086373, ENSP000003569464I2D: score=2 STRING: ENSP00000356946
    About this table

    Gene Ontology (GO): 4 biological process terms:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0006457protein folding TAS10812074
    GO:0006461protein complex assembly ----
    GO:0006953acute-phase response TAS2987268
    GO:0051131chaperone-mediated protein complex assembly TAS10972085

    APCS for ontologies           About GeneDecksing



    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience, ApexBio, HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB)
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    Browse Small Molecules at EMD Millipore
       Browse drugs & compounds from Enzo Life Sciences
      Browse compounds at ApexBio 

    Browse Tocris compounds for APCS (SAMP)

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

    3 DrugBank Compounds for APCS    About this table
    CompoundSynonyms CAS #TypeActionsPubMed Ids
    Methyl 4,6-O-[(1r)-1-Carboxyethylidene]-Beta-D-Galactopyranoside-- --target--17139284 17016423
    BIS-1,2-{[(Z)-2-CARBOXY-2-METHYL-1,3-DIOXANE]-5-YLOXYCARBAMOYL}-ETHANE-- --target--10592235
    BIS-1,2-{[(Z)-2CARBOXY-2-METHYL-1,3-DIOXANE]-5-YLOXYCARBONYL}-PIPERAZINE-- --target--10592235

    8 Novoseek inferred chemical compound relationships for APCS gene    About this table
    Compound   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
    saquinavir 67.7 1 12182226 (1)
    indinavir 64.1 2 12182226 (1), 10532286 (1)
    ganglioside 29.7 1 12733985 (1)
    phosphatidylethanolamine 26 5 11441067 (3), 8999915 (1)
    ceramide 25.2 1 12733985 (1)
    phospholipid 23.1 2 11441067 (1), 12609906 (1)
    anti-fungal 19.7 1 10450995 (1)
    lipid 0 1 15530444 (1)



    APCS for compounds           About GeneDecksing



    (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,
    exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
    siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN, SwitchGear Genomics,
    Tagged/untagged cDNA clones from OriGene, GenScript, DNA2.0, Vector BioLabs, Primers from OriGene, and/or QIAGEN )
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    REFSEQ mRNAs for APCS gene: 
    NM_001639.3  

    Unigene Cluster for APCS:

    Amyloid P component, serum
    Hs.507080  [show with all ESTs]
    Unigene Representative Sequence: BG533315
    1 Ensembl transcript including schematic representation, and UCSC links where relevant:
    ENST00000255040(uc001ftv.3)
    miRNA
    Products:
         
    Block miRNA regulation of human, mouse, rat APCS using miScript Target Protectors
    Search for qRT-PCR Assays for microRNAs that regulate APCS
    SwitchGear 3'UTR luciferase reporter plasmidAPCS 3' UTR sequence
    Inhib. RNA
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    Predesigned siRNA for gene silencing in human, mouse, rat APCS
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    OriGene ORF clones in mouse, rat for APCS
    OriGene custom cloning services - gene synthesis, subcloning, mutagenesis, variant library, vector shuttling
    GenScript: all cDNA clones in your preferred vector: APCS (NM_001639)
    DNA2.0 Custom Codon Optimized Gene Synthesis Service for APCS
    Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat APCS
    Primer
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    OriGene qPCR primer pairs and template standards for APCS
    OriGene qSTAR qPCR primer pairs in human, mouse for APCS
    Pre-validated RT2 qPCR Primer Assay in human, mouse, rat APCS
      QuantiTect SYBR Green Assays in human, mouse, rat APCS
      QuantiFast Probe-based Assays in human, mouse, rat APCS

    Additional mRNA sequence: 

    BC007039.1 BC007058.1 BC070178.1 BT006750.1 CR450313.1 M10944.1 X04608.1 

    3 DOTS entries:

    DT.413275  DT.91827599  DT.92447980 

    Selected AceView cDNA sequences (see all 177):

    AV659282 C20929 CK904372 AV659408 AV653918 BG568058 AV658456 BG533525 
    BG618846 CK904371 CB162114 BG567413 BG617439 BG533315 BG569529 BG562390 
    BG562396 BG569117 BG617984 BG563941 BG565555 BG567133 BG618324 BG545320 

    GeneLoc Exon Structure


    (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™, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MaxQB, plus additional links to SOURCE, and/or BioGPS, and/or UniProtKB,
    PCR Arrays from QIAGEN, Primers from OriGene, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
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    APCS expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: TGGGACTCTG
    APCS Expression
    About this image


    APCS expression in embryonic tissues and stem cells    About this table
    Data from LifeMap, the Embryonic Development and Stem Cells Database
     selected tissues (see all 3) fully expand
     
     Liver (Hepatobiliary System)
             Hepatocytes Liver Lobule
     
     Lung (Respiratory System)
     
     Gall Bladder (Hepatobiliary System)
    APCS Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

    APCS Protein Expression

    SOURCE GeneReport for Unigene cluster: Hs.507080

    UniProtKB/Swiss-Prot: SAMP_HUMAN, P02743
    Tissue specificity: Found in serum and urine

        Pathway & Disease-focused RT2 Profiler PCR Arrays including APCS: 
              Innate & Adaptive Immune Responses in human mouse rat
              Inflammatory Response & Autoimmunity 384HT in human mouse rat
              Antibacterial Response in human mouse rat

    Primer
    Products:
    OriGene qPCR primer pairs and template standards for APCS
    OriGene qSTAR qPCR primer pairs in human, mouse for APCS
    Pre-validated RT2 qPCR Primer Assay in human, mouse, rat APCS
    QuantiTect SYBR Green Assays in human, mouse, rat APCS
    QuantiFast Probe-based Assays in human, mouse, rat APCS
    In Situ
    Assay Products:
     

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for APCS

    (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)
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    This gene was present in the common ancestor of chordates.

    Orthologs for APCS gene from Selected species (see all 9)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Apcs1 , 5 serum amyloid P-component1, 5 74.02(n)1
    69.37(a)1
      1 (80.33 cM)5
    202191  NM_011318.21  NP_035448.21 
     1728939625 
    chicken
    (Gallus gallus)
    Aves CRP6
    Gallus gallus C-reactive protein, pentraxin-relate...
    45(a)
    1 → many
    25(1674627-1675765)
    lizard
    (Anolis carolinensis)
    Reptilia --
    --
    (see all 5)
    Uncharacterized protein
    (see all 5)
    43(a)
    42(a)
    (see all 5)
    many ↔ many
    many ↔ many
    (see all 5)
    GL343640.1(60469-66673)
    GL343640.1(49346-56006)
    zebrafish
    (Danio rerio)
    Actinopterygii crp26
    crp36
    (see all 7)
    C-reactive protein 3
    (see all 7)
    35(a)
    32(a)
    (see all 7)
    many ↔ many
    many ↔ many
    (see all 7)
    24(39585485-39588803) ENSDARG00000056462
    24(39591921-39600319) ENSDARG00000042613


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

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section

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    Paralogs for APCS gene
    NPTX22  CRP2  PTX42  NPTX12  NPTXR2  PTX32  
    2 SIMAP similar genes for APCS using alignment to 1 protein entry:     SAMP_HUMAN:
    CRP    MPTX1

    APCS for paralogs           About GeneDecksing


    2 Pseudogenes.org Pseudogenes for APCS
    PGOHUM00000245032 PGOHUM00000245035


    (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), the Human Cytochrome P450 Allele Nomenclature Database, and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers, Cancer Mutation PCR Arrays and Assays, and Copy Number PCR Arrays from QIAGEN)
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    Selected SNPs for APCS (see all 147)    About this table    
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 1 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    VAR_0358144
    A breast cancer sample4--see VAR_0358142 G S mis40--------
    rs1893625971,2
    --159555892(+) AAGTAC/TGAAAG 1 -- us2k10--------
    rs1808684881,2
    --159555915(+) GTATAG/TTTGGG 1 -- us2k10--------
    rs28086461,2
    C,F,A--159555924(+) GGATAT/ATAGAA 1 -- us2k11Minor allele frequency- A:0.41WA 118
    rs353118611,2
    C--159556051(+) ACTATA/GACCAT 1 -- us2k12Minor allele frequency- G:0.04NA EA 122
    rs1849238581,2
    --159556080(+) ATTAAC/TGTGGA 1 -- us2k10--------
    rs1477252361,2
    --159556140(+) CAAGAC/GAGTAT 1 -- us2k10--------
    rs1897673861,2
    --159556333(+) ATAATC/GCCAAC 1 -- us2k10--------
    rs1420279321,2
    --159556341(+) AACTTC/TATCAC 1 -- us2k10--------
    rs104943271,2
    F--159556451(+) GAAGGA/TTACTT 1 -- us2k16Minor allele frequency- T:0.09NS NA 226

    HapMap Linkage Disequilibrium report for APCS (159557615 - 159558661 bp)

    Structural Variations
          Database of Genomic Variants (DGV) variations for APCS: --
    Site Specific Mutation Identification with PCR Assays
    SeqTarget long-range PCR primers for resequencing APCS
    DNA2.0 Custom Variant and Variant Library Synthesis for APCS

    (in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Novoseek, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
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    OMIM gene information: 104770    OMIM disorders: --

    UniProtKB/Swiss-Prot: SAMP_HUMAN, P02743
  • Note=SAP is a precursor of amyloid component P which is found in basement membrane and associated with
    amyloid deposits

  • Selected diseases for APCS (see all 30):    
    About MalaCards
    amyloidosis, secondary    candida glabrata    oral candidiasis    carpal tunnel syndrome
    candidiasis    endocarditis    vaginitis    burns
    polyneuropathy    amyloidosis    pulmonary fibrosis    systemic lupus erythematosus
    dementia    influenza    breast and colorectal cancer    lupus erythematosus
    parkinson's disease    atherosclerosis    hepatitis b    alzheimer's disease

    3 diseases from the University of Copenhagen DISEASES database for APCS:
    Amyloidosis     Polyneuropathy     Alzheimer's disease

    APCS for disorders           About GeneDecksing

    6 Novoseek inferred disease relationships for APCS gene    About this table

    Disease   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
    candidiasis 69.4 3 11556759 (1), 12437091 (1), 17472610 (1)
    oropharyngeal 51.2 1 17472610 (1)
    response acute phase 42.7 1 16380821 (1)
    immunodeficiency 19.8 4 12182226 (1), 10532286 (1), 15770446 (1), 15094164 (1)
    inflammation 19.3 1 17138933 (1)
    aids 16.6 1 10770752 (1)

    Genetic Association Database (GAD): APCS
    Human Genome Epidemiology (HuGE) Navigator: APCS (11 documents)

    Export disorders for APCS 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)
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    PubMed articles for APCS gene, integrated from 10 sources (see all 137):
    (articles sorted by number of sources associating them with APCS)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Human serum amyloid P component. cDNA isolation, complete sequence of pre-serum amyloid P component, and localization of the gene to chromosome 1. (PubMed id 2987268)1, 2, 3 Mantzouranis E.C.... Colten H.R. (J. Biol. Chem. 1985)
    2. Susceptibility and modifier genes in Portuguese transthyretin V30M amyloid polyneuropathy: complexity in a single-gene disease. (PubMed id 15649951)1, 4, 9 Soares M.L....Buxbaum J.N. (Hum. Mol. Genet. 2005)
    3. Integrative predictive model of coronary artery calcification in atherosclerosis. (PubMed id 19948975)1, 4 McGeachie M....Ramoni M.F. (Circulation 2009)
    4. Association of polymorphisms in complement component C3 gene with susceptibility to systemic lupus erythematosus. (PubMed id 18174230)1, 4 Miyagawa H....Horiuchi T. (Rheumatology (Oxford) 2008)
    5. The DNA sequence and biological annotation of human chromosome 1. (PubMed id 16710414)1, 2 Gregory S.G.... Bentley D.R. (Nature 2006)
    6. Human plasma N-glycoproteome analysis by immunoaffinity subtraction, hydrazide chemistry, and mass spectrometry. (PubMed id 16335952)1, 2 Liu T.... Smith R.D. (J. Proteome Res. 2005)
    7. Proteomic characterization of novel serum amyloid P component variants from human plasma and urine. (PubMed id 15174148)1, 2 Kiernan U.A.... Nelson R.W. (Proteomics 2004)
    8. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)1, 2 Gerhard D.S.... Malek J. (Genome Res. 2004)
    9. Crystal structure of a decameric complex of human serum amyloid P component with bound dAMP. (PubMed id 9217261)1, 2 Hohenester E.... Wood S.P. (J. Mol. Biol. 1997)
    10. Human serum amyloid P component is an invariant constituent of amyloid deposits and has a uniquely homogeneous glycostructure. (PubMed id 8202534)1, 2 Pepys M.B.... Dwek R.A. (Proc. Natl. Acad. Sci. U.S.A. 1994)

    (in PubMed, OMIM, and NCBI Bookshelf)
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     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)
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    Entrez Gene: 325 HGNC: 584 AceView: APCS Ensembl:ENSG00000132703 euGenes: HUgn325
    ECgene: APCS H-InvDB: APCS

    (According to HUGE)
    About This Section

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      --

    (According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL, and/or others, e.g. Wikipedia and GeneReviews, via UniProtKB/Swiss-Prot)
    About This Section

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    NameDescription
    PharmGKB entry for APCS Pharmacogenomics, SNPs, Pathways
    Wikipedia http://en.wikipedia.org/wiki/Serum_Amyloid_P_Component

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
    About This Section

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    Patent Information for APCS gene:
    Search GeneIP for patents involving APCS

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



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