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Aliases for APOBEC1 Gene

Aliases for APOBEC1 Gene

  • Apolipoprotein B MRNA Editing Enzyme, Catalytic Polypeptide 1 2 3
  • Apolipoprotein B MRNA-Editing Enzyme 1 3 4
  • BEDP 3 6
  • HEPR 3 4
  • Apolipoprotein B MRNA Editing Enzyme Complex-1 3
  • C->U-Editing Enzyme APOBEC-1 3
  • EC 3.5.4.- 4
  • APOBEC-1 3
  • EC 3.5.4 63
  • CDAR1 3

External Ids for APOBEC1 Gene

Previous GeneCards Identifiers for APOBEC1 Gene

  • GC12M007674
  • GC12M007970
  • GC12M007693
  • GC12M007801

Summaries for APOBEC1 Gene

Entrez Gene Summary for APOBEC1 Gene

  • This gene encodes a member of the cytidine deaminase enzyme family. The encoded protein forms a multiple-protein editing holoenzyme with APOBEC1 complementation factor (ACF) and APOBEC1 stimulating protein (ASP). This holoenzyme is involved in the editing of C-to-U nucleotide bases in apolipoprotein B and neurofibromatosis-1 mRNAs. Multiple transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Feb 2015]

GeneCards Summary for APOBEC1 Gene

APOBEC1 (Apolipoprotein B MRNA Editing Enzyme, Catalytic Polypeptide 1) is a Protein Coding gene. Diseases associated with APOBEC1 include neurofibromatosis. Among its related pathways are Gene Expression and Formation of editosomes by ADAR proteins. GO annotations related to this gene include RNA binding and cytidine deaminase activity. An important paralog of this gene is AICDA.

UniProtKB/Swiss-Prot for APOBEC1 Gene

  • Catalytic component of the apolipoprotein B mRNA editing enzyme complex which is responsible for the postranscriptional editing of a CAA codon for Gln to a UAA codon for stop in the APOB mRNA. Also involved in CGA (Arg) to UGA (Stop) editing in the NF1 mRNA. May also play a role in the epigenetic regulation of gene expression by participating in DNA demethylation.

Gene Wiki entry for APOBEC1 Gene

No data available for Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for APOBEC1 Gene

Genomics for APOBEC1 Gene

Regulatory Elements for APOBEC1 Gene

Genomic Location for APOBEC1 Gene

Start:
7,649,400 bp from pter
End:
7,670,599 bp from pter
Size:
21,200 bases
Orientation:
Minus strand

Genomic View for APOBEC1 Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for APOBEC1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for APOBEC1 Gene

Proteins for APOBEC1 Gene

  • Protein details for APOBEC1 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    P41238-ABEC1_HUMAN
    Recommended name:
    C->U-editing enzyme APOBEC-1
    Protein Accession:
    P41238
    Secondary Accessions:
    • Q9UE64
    • Q9UM71

    Protein attributes for APOBEC1 Gene

    Size:
    236 amino acids
    Molecular mass:
    28192 Da
    Cofactor:
    Name=Zn(2+); Xref=ChEBI:CHEBI:29105;
    Quaternary structure:
    • Homodimer. Part of the apolipoprotein B mRNA editing complex with A1CF. Found in a complex with CELF2/CUGBP2 and A1CF. Interacts with HNRPAB and SYNCRIP.

neXtProt entry for APOBEC1 Gene

Proteomics data for APOBEC1 Gene at MOPED

Selected DME Specific Peptides for APOBEC1 Gene

Post-translational modifications for APOBEC1 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for APOBEC1 Gene

ENSEMBL proteins:
Reactome Protein details:
REFSEQ proteins:

Domains for APOBEC1 Gene

Gene Families for APOBEC1 Gene

HGNC:
  • APOBEC :Apolipoprotein B mRNA editing enzymes

Suggested Antigen Peptide Sequences for APOBEC1 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

P41238

UniProtKB/Swiss-Prot:

ABEC1_HUMAN :
  • P41238
Domain:
  • Contains 1 CMP/dCMP-type deaminase domain.
Family:
  • Belongs to the cytidine and deoxycytidylate deaminase family.
genes like me logo Genes that share domains with APOBEC1: view

Function for APOBEC1 Gene

Molecular function for APOBEC1 Gene

GENATLAS Biochemistry: apolipoprotein B,mRNA editing component 1 (catalytic subunit),expressed in the small intestine and liver
UniProtKB/Swiss-Prot Function: Catalytic component of the apolipoprotein B mRNA editing enzyme complex which is responsible for the postranscriptional editing of a CAA codon for Gln to a UAA codon for stop in the APOB mRNA. Also involved in CGA (Arg) to UGA (Stop) editing in the NF1 mRNA. May also play a role in the epigenetic regulation of gene expression by participating in DNA demethylation.

Enzyme Numbers (IUBMB) for APOBEC1 Gene

Gene Ontology (GO) - Molecular Function for APOBEC1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003723 RNA binding TAS 7736571
GO:0003824 catalytic activity --
GO:0004126 cytidine deaminase activity TAS 7736571
GO:0005515 protein binding IPI 10669759
GO:0008270 zinc ion binding IEA --
genes like me logo Genes that share ontologies with APOBEC1: view
genes like me logo Genes that share phenotypes with APOBEC1: view

Animal Models for APOBEC1 Gene

MGI Knock Outs for APOBEC1:

Animal Model Products

CRISPR Products

miRNA Products

Inhibitory RNA Products

  • Predesigned siRNA for gene silencing in human,mouse,rat for APOBEC1

In Situ Assay Products

Flow Cytometry Products

No data available for miRNA , Transcription Factor Targeting and HOMER Transcription for APOBEC1 Gene

Localization for APOBEC1 Gene

Subcellular locations from UniProtKB/Swiss-Prot for APOBEC1 Gene

Cytoplasm.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for APOBEC1 Gene COMPARTMENTS Subcellular localization image for APOBEC1 gene
Compartment Confidence
nucleus 4
cytosol 2
peroxisome 1

Gene Ontology (GO) - Cellular Components for APOBEC1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005654 nucleoplasm TAS --
GO:0005737 cytoplasm IDA 22580899
genes like me logo Genes that share ontologies with APOBEC1: view

Pathways for APOBEC1 Gene

genes like me logo Genes that share pathways with APOBEC1: view

Pathways by source for APOBEC1 Gene

Gene Ontology (GO) - Biological Process for APOBEC1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006396 RNA processing TAS 7736571
GO:0006397 mRNA processing IEA --
GO:0006629 lipid metabolic process TAS 8078915
GO:0006970 response to osmotic stress IEA --
GO:0009972 cytidine deamination TAS 7736571
genes like me logo Genes that share ontologies with APOBEC1: view

Compounds for APOBEC1 Gene

(6) Novoseek inferred chemical compound relationships for APOBEC1 Gene

Compound -log(P) Hits PubMed IDs
cytidine 91.3 25
uridine 66.6 5
cytosine 52.3 2
ethanol 14.9 4
zinc 11.9 2
genes like me logo Genes that share compounds with APOBEC1: view

Transcripts for APOBEC1 Gene

mRNA/cDNA for APOBEC1 Gene

Unigene Clusters for APOBEC1 Gene

Apolipoprotein B mRNA editing enzyme, catalytic polypeptide 1:
Representative Sequences:

CRISPR Products

miRNA Products

Inhibitory RNA Products

  • Predesigned siRNA for gene silencing in human,mouse,rat for APOBEC1

Primer Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for APOBEC1 Gene

No ASD Table

Relevant External Links for APOBEC1 Gene

GeneLoc Exon Structure for
APOBEC1
ECgene alternative splicing isoforms for
APOBEC1

Expression for APOBEC1 Gene

mRNA expression in normal human tissues for APOBEC1 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for APOBEC1 Gene

This gene is overexpressed in Small Intestine - Terminal Ileum (43.6) and Colon - Transverse (7.3).

Integrated Proteomics: protein expression from ProteomicsDB, PaxDb, and MOPED for APOBEC1 Gene

SOURCE GeneReport for Unigene cluster for APOBEC1 Gene Hs.560

mRNA Expression by UniProt/SwissProt for APOBEC1 Gene

P41238-ABEC1_HUMAN
Tissue specificity: Expressed exclusively in the small intestine
genes like me logo Genes that share expressions with APOBEC1: view

In Situ Assay Products

Orthologs for APOBEC1 Gene

This gene was present in the common ancestor of chordates.

Orthologs for APOBEC1 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia APOBEC1 35
  • 99.29 (n)
  • 98.31 (a)
APOBEC1 36
  • 98 (a)
OneToOne
cow
(Bos Taurus)
Mammalia APOBEC1 35
  • 80.23 (n)
  • 72.88 (a)
APOBEC1 36
  • 73 (a)
OneToOne
dog
(Canis familiaris)
Mammalia APOBEC1 35
  • 83.05 (n)
  • 77.97 (a)
APOBEC1 36
  • 78 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Apobec1 35
  • 77.34 (n)
  • 71.05 (a)
Apobec1 16
Apobec1 36
  • 71 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia APOBEC1 36
  • 67 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia APOBEC1 36
  • 44 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Apobec1 35
  • 76.61 (n)
  • 69.74 (a)
lizard
(Anolis carolinensis)
Reptilia APOBEC1 36
  • 39 (a)
OneToOne
Species with no ortholog for APOBEC1:
  • A. gosspyii yeast (Ashbya 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)
  • 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)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (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 APOBEC1 Gene

ENSEMBL:
Gene Tree for APOBEC1 (if available)
TreeFam:
Gene Tree for APOBEC1 (if available)

Paralogs for APOBEC1 Gene

Selected SIMAP similar genes for APOBEC1 Gene using alignment to 2 proteins:

genes like me logo Genes that share paralogs with APOBEC1: view

Variants for APOBEC1 Gene

Sequence variations from dbSNP and Humsavar for APOBEC1 Gene

SNP ID Clin Chr 12 pos Sequence Context AA Info Type MAF
rs1015102 -- 7,657,703(-) agaga(C/T)ggaaa intron-variant
rs1035074 -- 7,657,584(+) AAAAA(A/C)AAACC intron-variant
rs1806839 -- 7,667,075(+) CCAGG(A/C)TAATT upstream-variant-2KB, intron-variant
rs1860979 -- 7,664,778(+) GGCCC(A/G)TGCCT intron-variant
rs1860980 -- 7,664,806(+) GGAAG(C/G)TGAGG intron-variant

Structural Variations from Database of Genomic Variants (DGV) for APOBEC1 Gene

Variant ID Type Subtype PubMed ID
nsv826213 CNV Gain 20364138
dgv178n27 CNV Loss 19166990
nsv521149 CNV Loss 19592680
dgv263n67 CNV Gain 20364138
nsv826216 CNV Gain 20364138
dgv5e196 CNV Duplication 17116639
nsv521241 CNV Loss 19592680

Relevant External Links for APOBEC1 Gene

HapMap Linkage Disequilibrium report
APOBEC1

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for APOBEC1 Gene

Disorders for APOBEC1 Gene

MalaCards: The human disease database

MalaCards: The human disease database. (1) Diseases for APOBEC1 Gene including...

Search for APOBEC1 Gene in MalaCards »

(7) Novoseek inferred disease relationships for APOBEC1 Gene

Disease -log(P) Hits PubMed IDs
immunodeficiency 41.4 8
hepatitis b 27.1 2
neurofibromatosis type 1 26.2 2
hepatocellular carcinoma 13.8 2
hypercholesterolemia 6.12 1

Relevant External Links for APOBEC1

Genetic Association Database (GAD)
APOBEC1
Human Genome Epidemiology (HuGE) Navigator
APOBEC1
genes like me logo Genes that share disorders with APOBEC1: view

No data available for UniProtKB/Swiss-Prot for APOBEC1 Gene

Publications for APOBEC1 Gene

  1. Human apolipoprotein B RNA editing deaminase gene (APOBEC1). (PMID: 9479499) Fujino T. … Scott J. (Genomics 1998) 3 4 23
  2. Molecular cloning of a human small intestinal apolipoprotein B mRNA editing protein. (PMID: 8208612) Hadjiagapiou C. … Davidson N.O. (Nucleic Acids Res. 1994) 3 4 23
  3. C-->U editing of neurofibromatosis 1 mRNA occurs in tumors that express both the type II transcript and apobec-1, the catalytic subunit of the apolipoprotein B mRNA-editing enzyme. (PMID: 11727199) Mukhopadhyay D. … Davidson N.O. (Am. J. Hum. Genet. 2002) 3 4 23
  4. Investigation of the Lith6 candidate genes APOBEC1 and PPARG in human gallstone disease. (PMID: 17696929) Schafmayer C. … Tepel J. (Liver Int. 2007) 3 23 48
  5. APOBEC-1 and AID are nucleo-cytoplasmic trafficking proteins but APOBEC3G cannot traffic. (PMID: 16999936) Bennett R.P. … Smith H.C. (Biochem. Biophys. Res. Commun. 2006) 3 23

Products for APOBEC1 Gene

Sources for APOBEC1 Gene

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