APCS Gene

Aliases
for APCS gene

(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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Previous GC identifers: GC01P157349 GC01P155289 GC01P156335 GC01P156774 GC01P156370 GC01P157824 GC01P130914

Summaries
for APCS gene

(According to Entrez Gene, GeneCards, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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Genomic Views
for APCS 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 at NCBI GenBank:

NC_000001.10  NC_018912.2  NT_004487.20  

SwitchGear Promoter luciferase reporter plasmid: APCS promoter sequence

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

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


GeneLoc information about chromosome 1         GeneLoc Exon Structure

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

Proteins
for APCS gene

(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, Cloud-Clone Corp., eBioscience, antibodies-online, and/or GeneTex,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, Cloud-Clone Corp., eBioscience, and/or antibodies-online, Antibodies by EMD Millipore, R&D Systems, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, Abcam, Cloud-Clone Corp, antibodies-online, and/or others.)
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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: 

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APCS Assay Products:

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	antibodies-online kits for APCS (29 products)

Domains /
Families
for APCS gene

(According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GenesLikeMe)
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ProtoNet protein and cluster: P02743

Find genes that share domains with APCS           About GenesLikeMe

Function
for APCS gene

(According to ¹UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or ²DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, 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, Vector BioLabs and/or Addgene, Cell Lines from GenScript, ESI BIO, In Situ Hybridization Assays from Advanced Cell Diagnostics, Flow cytometry from eBioscience, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene, Sets of similar genes according to GenesLikeMe)
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     Gene Ontology (GO): 2 molecular function terms:    About this table

(inferred from 2 alleles) (MGI details for Apcs)

genOway: Develop your customized and physiologically relevant rodent model for APCS

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Gene Editing Products:

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In Situ Assay Products:

Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for APCS

Localization
for APCS gene

(According to UniProtKB, COMPARTMENTS Subcellular localization database, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene, Sets of similar genes according to GenesLikeMe)
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Subcellular locations from COMPARTMENTS: 

Compartment	Confidence
extracellular	5
nucleus	2
cytoskeleton	1
mitochondrion	1
peroxisome	1

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

Pathways & Interactions
for APCS gene

(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 GenesLikeMe, 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, Sets of similar genes according to GenesLikeMe)
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SuperPaths for APCS About     See pathways by source

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	SuperPath	Contained pathways About
1	RNA Polymerase I Promoter Opening	Amyloids 0.68
2	Disease	Disease

1 Reactome Pathway for APCS

Amyloids

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

Drugs & Compounds
for APCS gene

(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, Sets of similar genes according to GenesLikeMe)
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Transcripts
for APCS gene

(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, and/or Addgene, Primers from OriGene, and/or QIAGEN, Flow cytometry from eBioscience )
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Expression
for APCS gene

(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 GenesLikeMe, 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

About this image

Liver (Hepatobiliary System)
Hepatocytes Liver Lobule
Lung (Respiratory System)
Gall Bladder (Hepatobiliary System)

Primer Products:		OriGene qPCR primer pairs and template standards for APCS OriGene qSTAR qPCR primer pairs in human, mouse for APCS
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In Situ Assay Products:

Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for APCS

Orthologs
for APCS gene

(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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Paralogs
for APCS gene

(Paralogs according to ¹HomoloGene,
²Ensembl, and ³SIMAP, Pseudogenes according to ⁴Pseudogene.org Build 68,Sets of similar genes according to GenesLikeMe)
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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

Find genes that share paralogs with APCS           About GenesLikeMe


2 Pseudogenes.org Pseudogenes for APCS
PGOHUM00000245032 PGOHUM00000245035

Genomic Variants
for APCS gene

(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 Data					Transcription Related Data				Allele Frequencies
SNP ID	Valid	Clinical significance	Chr 1 pos	Sequence	#	AA Chg	Type	More	#	Allele freq	Pop	Total sample	More
-1st2nd3rd	-1st2nd3rd	-1st2nd3rd	-1st2nd3rd	--	--	--	-1st2nd3rd	--	--	-1st2nd3rd	-1st2nd3rd	-1st2nd3rd
VAR_0358144		A breast cancer sample4	--	see VAR_035814	2	G S	mis4		0	--	--	--	--
rs1893625971,2		--	159555892(+)	AAGTAC/TGAAAG	1	--	us2k1		0	--	--	--	--
rs1808684881,2		--	159555915(+)	GTATAG/TTTGGG	1	--	us2k1		0	--	--	--	--
rs28086461,2	C,F,A	--	159555924(+)	GGATAT/ATAGAA	1	--	us2k1		1		WA	118
rs353118611,2	C	--	159556051(+)	ACTATA/GACCAT	1	--	us2k1		2		NA EA	122
rs1849238581,2		--	159556080(+)	ATTAAC/TGTGGA	1	--	us2k1		0	--	--	--	--
rs1477252361,2		--	159556140(+)	CAAGAC/GAGTAT	1	--	us2k1		0	--	--	--	--
rs1897673861,2		--	159556333(+)	ATAATC/GCCAAC	1	--	us2k1		0	--	--	--	--
rs1420279321,2		--	159556341(+)	AACTTC/TATCAC	1	--	us2k1		0	--	--	--	--
rs104943271,2	F	--	159556451(+)	GAAGGA/TTACTT	1	--	us2k1		6		NS 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

Disorders / Diseases
for APCS gene

(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, Sets of similar genes according to GenesLikeMe)
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Note=SAP is a precursor of amyloid component P which is found in basement membrane and associated with

amyloid deposits

4 diseases for APCS:    
About MalaCards

6 Novoseek inferred disease relationships for APCS gene    About this table

Publications
for APCS gene

(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)

External Searches for APCS gene

Genome Databases showing APCS gene

Other Databases showing APCS gene

Specialized Databases showing APCS gene

Products
for APCS gene

(Antibodies, recombinant proteins, and assays from EMD Millipore, R&D Systems, OriGene, QIAGEN, GenScript, Cell Signaling Technology, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Cloud-Clone Corp., Thermo Fisher Scientific, eBioscience, antibodies-online, GeneTex, and/or others, Gene Editing from DNA2.0. Clones from OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Addgene, Cell lines from GenScript, and ESI BIO, Flow cytometery from eBioscience, PCR Arrays from QIAGEN, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, Enzo Life Sciences, and/or ApexBio, In Situ Hybridization Assays from
Advanced Cell Diagnostics, Animal models from genOway)
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