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 en... See more...

Aliases for APOBEC3C Gene

Aliases for APOBEC3C Gene

  • Apolipoprotein B MRNA Editing Enzyme Catalytic Subunit 3C 2 3 5
  • APOBEC1L 2 3 4
  • PBI 2 3 4
  • Apolipoprotein B MRNA Editing Enzyme, Catalytic Polypeptide-Like 3C 2 3
  • DNA DC->DU-Editing Enzyme APOBEC-3C 3 4
  • Phorbolin I 3 4
  • BK150C2.3 2 3
  • ARDC2 2 3
  • ARDC4 2 3
  • ARP5 2 3
  • A3C 3 4
  • Apolipoprotein B Editing Enzyme Catalytic Polypeptide-Like 3C 3
  • Probable DNA DC->DU-Editing Enzyme APOBEC-3C 3
  • APOBEC1-Like 4
  • EC 3.5.4.38 4
  • APOBEC3C 5

External Ids for APOBEC3C Gene

Previous GeneCards Identifiers for APOBEC3C Gene

  • GC22U990105
  • GC22P036025
  • GC22P037653
  • GC22P037734
  • GC22P039379
  • GC22P022378
  • GC22P039410

Summaries for APOBEC3C Gene

Entrez Gene Summary for APOBEC3C Gene

  • 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]

GeneCards Summary for APOBEC3C Gene

APOBEC3C (Apolipoprotein B MRNA Editing Enzyme Catalytic Subunit 3C) is a Protein Coding gene. Diseases associated with APOBEC3C include Plantar Wart. Among its related pathways are Gene Expression and mRNA Editing- C to U Conversion. Gene Ontology (GO) annotations related to this gene include hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amidines. An important paralog of this gene is APOBEC3D.

UniProtKB/Swiss-Prot Summary for APOBEC3C Gene

  • 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 Gene

Additional gene information for APOBEC3C Gene

No data available for CIViC Summary , Tocris Summary , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for APOBEC3C Gene

Genomics for APOBEC3C Gene

GeneHancer (GH) Regulatory Elements Pubs

Promoters and enhancers for APOBEC3C Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH22J039019 Promoter/Enhancer 1.8 EPDnew Ensembl ENCODE CraniofacialAtlas dbSUPER 610.3 +7.3 7279 3.4 IKZF1 BACH1 LARP7 ZIC2 PKNOX1 IKZF2 SCRT2 SP2 DPF2 RELB APOBEC3C APOBEC3D HSALNG0135466 APOBEC3F ENSG00000284554 piR-46491-001 APOBEC3G
GH22J039012 Promoter/Enhancer 1.8 EPDnew Ensembl ENCODE CraniofacialAtlas 610.9 +0.2 242 3.8 PRDM10 REST LEF1 IKZF1 ZNF692 POLR2A JUND MTA2 ZNF143 ZIC2 APOBEC3C ENSG00000284554 piR-33211-004 APOBEC3D APOBEC3G SNORD83A APOBEC3F
GH22J039017 Promoter/Enhancer 1.3 EPDnew Ensembl ENCODE dbSUPER 613.5 +3.8 3836 1.5 CTCF USF1 POLR2A POU5F1 APOBEC3D APOBEC3C APOBEC3F ENSG00000284554
GH22J039020 Promoter/Enhancer 0.5 EPDnew dbSUPER 600.4 +5.4 5384 0.1 APOBEC3D APOBEC3F HSALNG0135466 APOBEC3C ENSG00000284554
GH22J038174 Promoter/Enhancer 2.7 EPDnew FANTOM5 Ensembl ENCODE CraniofacialAtlas dbSUPER 11.4 -835.4 -835427 8.7 SP1 CREB1 GATAD2A ATF7 PRDM10 ZNF629 TFE3 LEF1 SOX13 IKZF1 PLA2G6 DDX17 MAFF ENSG00000228274 CSNK1E ANKRD54 CBY1 ENSG00000230912 GGA1 TMEM184B
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around APOBEC3C on the GeneHancer Hub at the UCSC Golden Path

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for APOBEC3C

Top Transcription factor binding sites by QIAGEN in the APOBEC3C gene promoter:
  • c-Myc
  • GR
  • GR-alpha
  • Max
  • Max1
  • SREBP-1a
  • SREBP-1b
  • SREBP-1c
  • USF1
  • ZID

Genomic Locations for APOBEC3C Gene

Genomic Locations for APOBEC3C Gene
chr22:39,014,236-39,020,352
(GRCh38/hg38)
Size:
6,117 bases
Orientation:
Plus strand
chr22:39,410,088-39,416,357
(GRCh37/hg19)
Size:
6,270 bases
Orientation:
Plus strand

Genomic View for APOBEC3C Gene

Genes around APOBEC3C on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
APOBEC3C Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for APOBEC3C Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for APOBEC3C Gene

Proteins for APOBEC3C Gene

  • Protein details for APOBEC3C Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9NRW3-ABC3C_HUMAN
    Recommended name:
    DNA dC->dU-editing enzyme APOBEC-3C
    Protein Accession:
    Q9NRW3
    Secondary Accessions:
    • B2R884
    • Q5JZ92
    • Q7Z2N7
    • Q96F12

    Protein attributes for APOBEC3C Gene

    Size:
    190 amino acids
    Molecular mass:
    22826 Da
    Cofactor:
    Name=Zn(2+); Xref=ChEBI:CHEBI:29105;
    Quaternary structure:
    • Homodimer. Interacts with TRIB3 and AGO2.
    • (Microbial infection) Interacts with human foamy virus protein Bet; this interaction does not induce APOBEC3C degradation, but prevents dimerization and incorporation into virion of the latter.
    SequenceCaution:
    • Sequence=AAF86650.1; Type=Frameshift; Evidence={ECO:0000305};
    Miscellaneous:
    • It is one of seven related genes or pseudogenes found in a cluster, thought to result from gene duplication, on chromosome 22.

    Three dimensional structures from OCA and Proteopedia for APOBEC3C Gene

neXtProt entry for APOBEC3C Gene

Post-translational modifications for APOBEC3C Gene

  • Ubiquitination at Lys10 and Lys51
  • Modification sites at PhosphoSitePlus

Other Protein References for APOBEC3C Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for APOBEC3C Gene

Domains & Families for APOBEC3C Gene

Gene Families for APOBEC3C Gene

Protein Domains for APOBEC3C Gene

InterPro:
Blocks:
  • Cytidine/deoxycytidylate deaminase, zinc-binding region
  • APOBEC-like, C-terminal
ProtoNet:

Suggested Antigen Peptide Sequences for APOBEC3C Gene

GenScript: Design optimal peptide antigens:
  • Phorbolin I (ABC3C_HUMAN)

Graphical View of Domain Structure for InterPro Entry

Q9NRW3

UniProtKB/Swiss-Prot:

ABC3C_HUMAN :
  • Belongs to the cytidine and deoxycytidylate deaminase family.
Family:
  • Belongs to the cytidine and deoxycytidylate deaminase family.
genes like me logo Genes that share domains with APOBEC3C: view

Function for APOBEC3C Gene

Molecular function for APOBEC3C Gene

UniProtKB/Swiss-Prot 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.
UniProtKB/Swiss-Prot CatalyticActivity:
Reaction=a 2'-deoxycytidine in a single-stranded DNA + H(+) + H2O = a 2'-deoxyuridine in a single-stranded DNA + NH4(+); Xref=Rhea:RHEA:50948, Rhea:RHEA-COMP:12846, Rhea:RHEA-COMP:12847, ChEBI:CHEBI:15377, ChEBI:CHEBI:15378, ChEBI:CHEBI:28938, ChEBI:CHEBI:85452, ChEBI:CHEBI:133902; EC=3.5.4.38;.
UniProtKB/Swiss-Prot Induction:
Up-regulated by IFN-alpha.

Enzyme Numbers (IUBMB) for APOBEC3C Gene

Phenotypes From GWAS Catalog for APOBEC3C Gene

Gene Ontology (GO) - Molecular Function for APOBEC3C Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003723 RNA binding IBA 21873635
GO:0003824 catalytic activity IEA --
GO:0004126 cytidine deaminase activity IBA 21873635
GO:0005515 protein binding IPI 22915799
GO:0008270 zinc ion binding IEA --
genes like me logo Genes that share ontologies with APOBEC3C: view
genes like me logo Genes that share phenotypes with APOBEC3C: view

Animal Model Products

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for APOBEC3C

No data available for Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for APOBEC3C Gene

Localization for APOBEC3C Gene

Subcellular locations from UniProtKB/Swiss-Prot for APOBEC3C Gene

Nucleus. Cytoplasm.

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for APOBEC3C gene
Compartment Confidence
nucleus 5
plasma membrane 1
extracellular 1
cytoskeleton 1
mitochondrion 1
endoplasmic reticulum 1
endosome 1
cytosol 1
lysosome 1
golgi apparatus 1

Subcellular locations from the

Human Protein Atlas (HPA)
  • Intermediate filaments (2)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for APOBEC3C Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000932 P-body IBA 21873635
GO:0005634 nucleus IBA,IDA 21835787
GO:0005737 cytoplasm IBA,IDA 21835787
genes like me logo Genes that share ontologies with APOBEC3C: view

Pathways & Interactions for APOBEC3C Gene

genes like me logo Genes that share pathways with APOBEC3C: view

Pathways by source for APOBEC3C Gene

Gene Ontology (GO) - Biological Process for APOBEC3C Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0002376 immune system process IEA --
GO:0009972 cytidine deamination IDA 21632763
GO:0010529 negative regulation of transposition IDA 16527742
GO:0016032 viral process IEA --
GO:0016554 cytidine to uridine editing IBA 21873635
genes like me logo Genes that share ontologies with APOBEC3C: view

No data available for SIGNOR curated interactions for APOBEC3C Gene

Drugs & Compounds for APOBEC3C Gene

(4) Drugs for APOBEC3C Gene - From: HMDB

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
Ammonia Approved Pharma 0
Cytarabine Approved, Experimental, Investigational Pharma 1335
Water Approved Pharma 0
Uridine Experimental, Investigational Pharma 0
genes like me logo Genes that share compounds with APOBEC3C: view

Transcripts for APOBEC3C Gene

mRNA/cDNA for APOBEC3C Gene

1 REFSEQ mRNAs :
9 NCBI additional mRNA sequence :
2 Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for APOBEC3C

Alternative Splicing Database (ASD) splice patterns (SP) for APOBEC3C Gene

No ASD Table

Relevant External Links for APOBEC3C Gene

GeneLoc Exon Structure for
APOBEC3C

Expression for APOBEC3C Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for APOBEC3C Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

  • Tonsil (Hematopoietic System)

mRNA differential expression in normal tissues according to GTEx for APOBEC3C Gene

This gene is overexpressed in Whole Blood (x4.3).

Protein differential expression in normal tissues from HIPED for APOBEC3C Gene

This gene is overexpressed in Tlymphocyte (14.0), Peripheral blood mononuclear cells (9.5), Monocytes (8.8), and NK cells (8.4).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for APOBEC3C Gene



Protein tissue co-expression partners for APOBEC3C Gene

- Elite partner

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for APOBEC3C

SOURCE GeneReport for Unigene cluster for APOBEC3C Gene:

Hs.441124

mRNA Expression by UniProt/SwissProt for APOBEC3C Gene:

Q9NRW3-ABC3C_HUMAN
Tissue specificity: Expressed in spleen, testes, peripherical blood lymphocytes, heart, thymus, prostate and ovary.

Evidence on tissue expression from TISSUES for APOBEC3C Gene

  • Intestine(2.8)
  • Spleen(2.7)
  • Kidney(2.5)
  • Lymph node(2.5)
  • Blood(2.4)
  • Skin(2.4)
  • Heart(2.3)
  • Muscle(2.2)
  • Nervous system(2.1)
genes like me logo Genes that share expression patterns with APOBEC3C: view

No data available for Phenotype-based relationships between genes and organs from Gene ORGANizer for APOBEC3C Gene

Orthologs for APOBEC3C Gene

This gene was present in the common ancestor of human and chimp.

Orthologs for APOBEC3C Gene

Organism Taxonomy Gene Similarity Type Details
Chimpanzee
(Pan troglodytes)
Mammalia APOBEC3C 30 31
  • 99.12 (n)
OneToOne
Species where no ortholog for APOBEC3C was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Eremothecium gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • Alpha proteobacteria (Wolbachia pipientis)
  • Amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • Baker's yeast (Saccharomyces cerevisiae)
  • Barley (Hordeum vulgare)
  • Beta proteobacteria (Neisseria meningitidis)
  • Bread mold (Neurospora crassa)
  • Chicken (Gallus gallus)
  • Chromalveolata (Phytophthora infestans)
  • Common water flea (Daphnia pulex)
  • Corn (Zea mays)
  • Cow (Bos Taurus)
  • Dog (Canis familiaris)
  • E. coli (Escherichia coli)
  • Filamentous fungi (Aspergillus nidulans)
  • Firmicute Bacteria (Streptococcus pneumoniae)
  • Fission Yeast (Schizosaccharomyces pombe)
  • Fruit Fly (Drosophila melanogaster)
  • Green Algae (Chlamydomonas reinhardtii)
  • Honey Bee (Apis mellifera)
  • K. Lactis Yeast (Kluyveromyces lactis)
  • Lizard (Anolis carolinensis)
  • Loblloly Pine (Pinus taeda)
  • Malaria Parasite (Plasmodium falciparum)
  • Medicago Trunc (Medicago Truncatula)
  • Moss (Physcomitrella patens)
  • Mouse (Mus musculus)
  • Oppossum (Monodelphis domestica)
  • Orangutan (Pongo pygmaeus)
  • Pig (Sus scrofa)
  • Platypus (Ornithorhynchus anatinus)
  • Rainbow Trout (Oncorhynchus mykiss)
  • Rat (Rattus norvegicus)
  • Rice (Oryza sativa)
  • Rice Blast Fungus (Magnaporthe grisea)
  • Schistosome Parasite (Schistosoma mansoni)
  • Sea Anemone (Nematostella vectensis)
  • Sea Vase (Ciona intestinalis)
  • Sea Squirt (Ciona savignyi)
  • Sea Urchin (Strongylocentrotus purpuratus)
  • Sorghum (Sorghum bicolor)
  • Soybean (Glycine max)
  • Stem Rust Fungus (Puccinia graminis)
  • Sugarcane (Saccharum officinarum)
  • Thale Cress (Arabidopsis thaliana)
  • Tomato (Lycopersicon esculentum)
  • Toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • Tropical Clawed Frog (Silurana tropicalis)
  • Wheat (Triticum aestivum)
  • Worm (Caenorhabditis elegans)
  • Zebrafish (Danio rerio)

Evolution for APOBEC3C Gene

ENSEMBL:
Gene Tree for APOBEC3C (if available)
TreeFam:
Gene Tree for APOBEC3C (if available)
Aminode:
Evolutionary constrained regions (ECRs) for APOBEC3C: view image

Paralogs for APOBEC3C Gene

(11) SIMAP similar genes for APOBEC3C Gene using alignment to 3 proteins:

  • ABC3C_HUMAN
  • F8WB92_HUMAN
  • M4VP52_HUMAN
genes like me logo Genes that share paralogs with APOBEC3C: view

Variants for APOBEC3C Gene

Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for APOBEC3C Gene

SNP ID Clinical significance and condition Chr 22 pos Variation AA Info Type
710831 Benign: not provided 39,018,377(+) G/T MISSENSE_VARIANT

Additional dbSNP identifiers (rs#s) for APOBEC3C Gene

Structural Variations from Database of Genomic Variants (DGV) for APOBEC3C Gene

Variant ID Type Subtype PubMed ID
esv1001536 CNV loss 20482838
esv2724241 CNV deletion 23290073
esv2763703 CNV loss 21179565
esv3647751 CNV gain 21293372
esv3647753 CNV gain 21293372
nsv834196 CNV loss 17160897
nsv962793 CNV duplication 23825009

Variation tolerance for APOBEC3C Gene

Residual Variation Intolerance Score: 72.7% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 0.72; 15.19% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for APOBEC3C Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
APOBEC3C

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for APOBEC3C Gene

Disorders for APOBEC3C Gene

MalaCards: The human disease database

(1) MalaCards diseases for APOBEC3C Gene - From: DISEASES

Disorder Aliases PubMed IDs
plantar wart
  • verruca plantaris
- elite association - COSMIC cancer census association via MalaCards
genes like me logo Genes that share disorders with APOBEC3C: view

No data available for UniProtKB/Swiss-Prot and Genatlas for APOBEC3C Gene

Publications for APOBEC3C Gene

  1. An anthropoid-specific locus of orphan C to U RNA-editing enzymes on chromosome 22. (PMID: 11863358) Jarmuz A … Navaratnam N (Genomics 2002) 2 3 4
  2. HIV-1 replication and APOBEC3 antiviral activity are not regulated by P bodies. (PMID: 22915799) Phalora PK … Malim MH (Journal of virology 2012) 3 4
  3. Retroelements versus APOBEC3 family members: No great escape from the magnificent seven. (PMID: 22912627) Arias JF … Tokunaga K (Frontiers in microbiology 2012) 3 4
  4. Human Tribbles 3 protects nuclear DNA from cytidine deamination by APOBEC3A. (PMID: 22977230) Aynaud MM … Vartanian JP (The Journal of biological chemistry 2012) 3 4
  5. Hydroxylation of 5-methylcytosine by TET1 promotes active DNA demethylation in the adult brain. (PMID: 21496894) Guo JU … Song H (Cell 2011) 3 4

Products for APOBEC3C Gene

  • Signalway Proteins for APOBEC3C

Sources for APOBEC3C Gene