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

APOBEC3C Gene

protein-coding   GIFtS: 45
GCID: GC22P039410

apolipoprotein B mRNA editing enzyme, catalytic polypeptide-like...

 Explore 9 diseases affiliated with
APOBEC3C via our new
 Human Malady Compendium 
Biological research products
for APOBEC3C
    

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, and/or 10fRNAdb)
About This Section

Aliases
Apolipoprotein B MRNA Editing Enzyme, Catalytic Polypeptide-Like 3C1 2     BK150C2.31
APOBEC1L1 2 3     Phorbolin I2 3
PBI1 2 3     A3C2 3
ARDC21 2     Probable DNA DC->DU-Editing Enzyme APOBEC-3C2
ARDC41 2     APOBEC1-Like1
ARP51 2     EC 3.5.4.-3

External Ids:    HGNC: 173531   Entrez Gene: 273502   Ensembl: ENSG000002445097   OMIM: 6077505   UniProtKB: Q9NRW33   

Export aliases for APOBEC3C gene to outside databases

Previous GC identifers: GC22U990105 GC22P036025 GC22P037653 GC22P037734 GC22P039379 GC22P022378


(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 APOBEC3C:
This gene is a member of the cytidine deaminase gene family. It is one of seven related genes or pseudogenes found in a
cluster thought to result from gene duplication, on chromosome 22. Members of the cluster encode proteins that are
structurally and functionally related to the C to U RNA-editing cytidine deaminase APOBEC1. It is thought that the
proteins may be RNA editing enzymes and have roles in growth or cell cycle control. (provided by RefSeq, Jul 2008)

UniProtKB/Swiss-Prot: ABC3C_HUMAN, Q9NRW3
Function: DNA deaminase (cytidine deaminase) which acts as an inhibitor of retrovirus replication and retrotransposon
mobility via deaminase-dependent and -independent mechanisms. After the penetration of retroviral nucleocapsids into
target cells of infection and the initiation of reverse transcription, it can induce the conversion of cytosine to
uracil in the minus-sense single-strand viral DNA, leading to G-to-A hypermutations in the subsequent plus-strand
viral DNA. The resultant detrimental levels of mutations in the proviral genome, along with a deamination-independent
mechanism that works prior to the proviral integration, together exert efficient antiretroviral effects in infected
target cells. Selectively targets single-stranded DNA and does not deaminate double-stranded DNA or single-or
double-stranded RNA. Exhibits antiviral activity against simian immunodeficiency virus (SIV), hepatitis B virus (HBV),
herpes simplex virus 1 (HHV-1) and Epstein-Barr virus (EBV) and may inhibit the mobility of LTR and non-LTR
retrotransposons. May also play a role in the epigenetic regulation of gene expression through the process of active
DNA demethylation

Gene Wiki entry for APOBEC3C


(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 69), Regulatory elements and Epigenetics data according to QIAGEN, SABiosciences, and/or SwitchGear Genomics)
About This Section
RefSeq DNA sequence:
NC_000022.10  NC_018933.1  NT_011520.12  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the APOBEC3C gene promoter:
         Max1   GR   USF1   SREBP-1c   SREBP-1b   Max   SREBP-1a   ZID   GR-alpha   c-Myc   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidAPOBEC3C promoter sequence
   Search SABiosciences Chromatin IP Primers for APOBEC3C

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat APOBEC3C


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

Entrez Gene cytogenetic band: 22q13.1   Ensembl cytogenetic band:  22q13.1   HGNC cytogenetic band: 22q13.1-q13.2

APOBEC3C Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
APOBEC3C gene location

GeneLoc information about chromosome 22         GeneLoc Exon Structure

GeneLoc location for GC22P039410:  view genomic region     (about GC identifiers)

Start:
39,410,088 bp from pter      End:
39,414,931 bp from pter
Size:
4,844 bases      Orientation:
plus strand

(According to 1UniProtKB, HORDE, neXtProt, Ensembl, and/or Reactome, Modification sites according to 2PhosphoSitePlus, Specific Peptides from DME, Protein expression images according to data from SPIRE MOPED and PaxDb, 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 Uscn,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Uscn, Ontologies according to Gene Ontology Consortium 01 Mar 2013 and Entrez Gene, Antibodies by EMD Millipore, R&D Systems, GenScript, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, Abcam, and/or Uscn)
About This Section

UniProtKB/Swiss-Prot: ABC3C_HUMAN, Q9NRW3 (See protein sequence)
Recommended Name: DNA dC->dU-editing enzyme APOBEC-3C  
Size: 190 amino acids; 22826 Da
Cofactor: Zinc (By similarity)
Subunit: Homodimer. Interacts with human foamy virus protein Bet; this interaction does not induce APOBEC3C
degradation, but prevents dimerization and incorporation into virion of the latter. Interacts with TRIB3 and
EIF2C2/AGO2
Subcellular location: Nucleus. Cytoplasm
Miscellaneous: It is one of seven related genes or pseudogenes found in a cluster, thought to result from gene
duplication, on chromosome 22
Sequence caution: Sequence=AAF86650.1; Type=Frameshift; Positions=172;
2 PDB 3D structures from and Proteopedia for APOBEC3C:
3VM8 (3D)        3VOW (3D)    
Secondary accessions: B2R884 Q5JZ92 Q7Z2N7 Q96F12

Explore the universe of human proteins at neXtProt for APOBEC3C: NX_Q9NRW3

Post-translational modifications:

  • View modification sites using PhosphoSitePlus2
  • View neXtProt modification sites for NX_Q9NRW3

  • APOBEC3C Protein expression data from MOPED and PaxDb:    About this image 
    Estimated protein expression log10 (pmol).

    REFSEQ proteins: NP_055323.2  
    ENSEMBL proteins: 
     ENSP00000355340   ENSP00000390855  

    Human Recombinant Protein Products: 
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    Uscn Proteins for APOBEC3C

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

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005634nucleus IDA--
    GO:0005737cytoplasm IDA--


    APOBEC3C for ontologies           About GeneDecksing



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    Uscn ELISAs and CLIAs for APOBEC3C


    (According to InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
    About This Section

    APOBEC3C for domains           About GeneDecksing

    3 InterPro domains/families:
     IPR016193 Cytidine_deaminase-like
     IPR016192 APOBEC/CMP_deaminase_Zn-bd
     IPR007904 APOBEC_C

    Graphical View of Domain Structure for InterPro Entry Q9NRW3

    ProtoNet protein and cluster: Q9NRW3

    2 Blocks protein families:
    IPB002125 Cytidine/deoxycytidylate deaminase
    IPB007904 APOBEC-like


    UniProtKB/Swiss-Prot: ABC3C_HUMAN, Q9NRW3
    Similarity: Belongs to the cytidine and deoxycytidylate deaminase family
    Similarity: Contains 1 CMP/dCMP deaminase zinc-binding domain


    (According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013,
    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, Clones from EMD Millipore, OriGene, SwitchGear Genomics, GenScript, Sino Biological, DNA2.0, and Vector BioLabs, Cell Lines from GenScript, LifeMap BioReagents, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Mar 2013 via Entrez Gene.)
    About This Section

    Function Summary:

         UniProtKB/Swiss-Prot: ABC3C_HUMAN, Q9NRW3
    Function: DNA deaminase (cytidine deaminase) which acts as an inhibitor of retrovirus replication and retrotransposon
    mobility via deaminase-dependent and -independent mechanisms. After the penetration of retroviral nucleocapsids into
    target cells of infection and the initiation of reverse transcription, it can induce the conversion of cytosine to
    uracil in the minus-sense single-strand viral DNA, leading to G-to-A hypermutations in the subsequent plus-strand
    viral DNA. The resultant detrimental levels of mutations in the proviral genome, along with a deamination-independent
    mechanism that works prior to the proviral integration, together exert efficient antiretroviral effects in infected
    target cells. Selectively targets single-stranded DNA and does not deaminate double-stranded DNA or single-or
    double-stranded RNA. Exhibits antiviral activity against simian immunodeficiency virus (SIV), hepatitis B virus (HBV),
    herpes simplex virus 1 (HHV-1) and Epstein-Barr virus (EBV) and may inhibit the mobility of LTR and non-LTR
    retrotransposons. May also play a role in the epigenetic regulation of gene expression through the process of active
    DNA demethylation
    Catalytic activity: Cytidine + H(2)O = uridine + NH(3)
    Induction: Up-regulated by IFN-alpha

    Enzyme Number (IUBMB): EC 3.5.4.-1

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    Gene Ontology (GO): 3 molecular function terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005515protein binding IPI--
    GO:0008270zinc ion binding IEA--
    GO:0016814hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amidines IEA--


    APOBEC3C for ontologies           About GeneDecksing



    (Pathways according to EMD Millipore, R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, 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 Mar 2013 via Entrez Gene).
    About This Section



    Interactions:

        Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for APOBEC3C

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

    5/6 Interacting proteins for APOBEC3C (Q9NRW33 ENSP000003553404) via UniProtKB, MINT, STRING, and/or I2D (see all 6)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    SHBGP042783, ENSP000003698164I2D: score=3 STRING: ENSP00000369816
    CNBPP626333I2D: score=2 
    UBCENSP000003448184STRING: ENSP00000344818
    ELAVL1ENSP000003852694STRING: ENSP00000385269
    TRAF3ENSP000003324684STRING: ENSP00000332468
    About this table

    Gene Ontology (GO): 5/8 biological process terms (GO ID links to tree view) (see all 8):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0009615response to virus ----
    GO:0009972cytidine deamination IDA--
    GO:0010529negative regulation of transposition IDA--
    GO:0019048virus-host interaction IEA--
    GO:0044419interspecies interaction between organisms ----


    APOBEC3C for ontologies           About GeneDecksing



    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience HMDB, BitterDB, and/or Novoseek, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB, with drugs/clinical trials/news search links to CenterWatch)
    About This Section
    Browse Small Molecules at EMD Millipore
    Browse drugs & compounds from Enzo Life Sciences

    Browse Tocris compounds for APOBEC3C
    Search CenterWatch for drugs/clinical trials and news about APOBEC3C / ABC3C 

    (Secondary structures according to fRNAdb,
    GenBank/EMBL/DDBJ Accessions according to
    Unigene (Build 235 Homo sapiens; Mar 10 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,
    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, Primers from OriGene, SABiosciences, and/or QIAGEN )
    About This Section

    REFSEQ mRNAs for APOBEC3C gene: 
    NM_014508.2  

    Unigene Cluster for APOBEC3C:

    Apolipoprotein B mRNA editing enzyme, catalytic polypeptide-like 3C
    Hs.441124  [show with all ESTs]
    Unigene Representative Sequence: BM473129
    2 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000361441(uc003awr.3) ENST00000428892

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    Additional cDNA sequence: 

    AB208979.1 AF165520.1 AK313272.1 BC007954.2 BC011739.2 BC021080.1 CR456394.1 

    10 DOTS entries:

    DT.312711  DT.91671443  DT.100797885  DT.100797883  DT.100797884  DT.100740775  DT.100797882  DT.120661979 
    DT.100774417  DT.120661971 

    24/142 AceView cDNA sequences (see all 142):

    BQ921509 BM564332 CR456395 BX112841 BQ056344 AI217046 BF508948 NM_145298 
    BC038808 AI799894 BX367450 BX332251 CF142810 BF437832 AW505140 BG744406 
    BM977965 BX388243 AI910810 BU174800 BG758984 BX326730 CD656372 BX331204 

    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™, 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

    APOBEC3C expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS
    CGAP TAG: --

    Microarray
    RNAseq (Illumina Body Map)
    (100×FPKM)½
    SAGE (Serial Analysis of Gene Expression)

    About this image
    See APOBEC3C Protein Expression from SPIRE MOPED and PaxDB
    Genevestigator expression for APOBEC3C

    SOURCE GeneReport for Unigene cluster: Hs.441124

    UniProtKB/Swiss-Prot: ABC3C_HUMAN, Q9NRW3
    Tissue specificity: Expressed in spleen, testes, peripherical blood lymphocytes, heart, thymus, prostate and ovary

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    (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 chordates.

    Orthologs for APOBEC3C gene from 1/4 species (see all 4)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    lizard
    (Anolis carolinensis)
    Reptilia APOBEC16
    --
    25(a)
    possible ortholog
    3(98130519-98131040)


    ENSEMBL Gene Tree for APOBEC3C (if available)
    TreeFam Gene Tree for APOBEC3C (if available) 

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
    Paralogs for APOBEC3C gene
    APOBEC3G2  APOBEC3D2  APOBEC3F2  APOBEC12  APOBEC22  APOBEC3B2  APOBEC3A2  AICDA2  
    APOBEC3H2  
    12 SIMAP similar genes for APOBEC3C using alignment to 2 protein entries:     ABC3C_HUMAN (see all proteins):
    APOBEC3F    APOBEC3D    APOBEC3DE    bK150C2.9    APOBEC3B    AID
    APOBEC2    AICDA    APOBEC1    APOBEC3G    APOBEC3A    APOBEC3H

    APOBEC3C for paralogs           About GeneDecksing



    (SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, UniProtKB, 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

    10/188 NCBI SNPs in APOBEC3C are shown (see all 188    About this table
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 22 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs60013791,2
    C,F,A,--39408307(+) AAGGCG/ACATCC 1 -- us2k12Minor allele frequency- A:0.50NA 4
    rs560509321,2
    C,--39408321(+) ACAGCT/CCTAAA 1 -- us2k13Minor allele frequency- C:0.25WA CSA 4
    rs1926658421,2
    --39408364(+) TTCTGC/GGAGCA 1 -- us2k10--------
    rs2019032391,2
    --39408495(+) ATCTC-/TCTT  
            
    TCTTT
    1 -- us2k10--------
    rs1832444951,2
    --39408507(+) TTCCCC/TCACAA 1 -- us2k10--------
    rs1876367581,2
    --39408596(+) CTTAGA/CTGAAC 1 -- us2k10--------
    rs753461861,2
    --39408686(+) GCCGTA/GAGCCT 1 -- us2k10--------
    rs1913389641,2
    --39408715(+) CCACCA/GCTTGA 1 -- us2k10--------
    rs1844015681,2
    --39408786(+) TCCCCA/GTGTGT 1 -- us2k10--------
    rs1493761731,2
    --39408803(+) GAGAAA/GTCGTA 1 -- us2k10--------

    HapMap Linkage Disequilibrium report for APOBEC3C (39410088 - 39414931 bp)
    Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
          Database of Genomic Variants (DGV) variations for APOBEC3C: --

    SABiosciences Cancer Mutation PCR Assays
    QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing APOBEC3C
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    (in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
    About This Section

    APOBEC3C for disorders           About GeneDecksing

    OMIM gene information: 607750    OMIM disorders: --

    9 diseases for APOBEC3C:    About MalaCards
    albinism    hepatitis b    psoriasis    hepatitis
    retinitis    immunodeficiency    leukemia    prostatitis
    hiv type 1


    Export disorders for APOBEC3C 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 APOBEC3C gene, integrated from 9 sources (see all 72):
    (articles sorted by number of sources associating them with APOBEC3C)
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    1. An anthropoid-specific locus of orphan C to U RNA-editing enzymes on chromosome 22. (PubMed id 11863358)1, 2, 3 Jarmuz A....Navaratnam N. (2002)
    2. The APOBEC3 cytidine deaminases: an innate defensive network opposing exogenous retroviruses and endogenous retroelements. (PubMed id 18304004)1, 2 Chiu Y.L. and Greene W.C. (2008)
    3. APOBEC3A is a potent inhibitor of adeno-associated virus and retrotransposons. (PubMed id 16527742)1, 2 Chen H....Weitzman M.D. (2006)
    4. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)1, 2 Ota T.... Sugano S. (2004)
    5. A genome annotation-driven approach to cloning the human ORFeome. (PubMed id 15461802)1, 2 Collins J.E.... Dunham I. (2004)
    6. APOBEC3B and APOBEC3C are potent inhibitors of simian immunodeficiency virus replication. (PubMed id 15466872)1, 2 Yu Q....Landau N.R. (2004)
    7. 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. (2004)
    8. Species-specific exclusion of APOBEC3G from HIV-1 virions by Vif. (PubMed id 12859895)1, 2 Mariani R.... Landau N.R. (2003)
    9. The DNA sequence of human chromosome 22. (PubMed id 10591208)1, 2 Dunham I....O'Brien K.P. (1999)
    10. Species-specific inhibition of APOBEC3C by the prototype foamy virus protein bet. (PubMed id 19074429)2, 9 Perkovic M.... Muenk C. (2009)

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    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
    About This Section
    Entrez Gene: 27350 HGNC: 17353 AceView: APOBEC3F Ensembl:ENSG00000244509 euGenes: HUgn27350
    ECgene: APOBEC3C H-InvDB: APOBEC3C

    (According to HUGE)
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    (According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
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    About This Section
    NameDescription
    PharmGKB entry for APOBEC3C Pharmacogenomics, SNPs, Pathways

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    Patent Information for APOBEC3C gene:
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