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    Apobec3 apolipoprotein B mRNA editing enzyme, catalytic polypeptide 3 [ Mus musculus (house mouse) ]

    Gene ID: 80287, updated on 9-Dec-2024

    Summary

    Official Symbol
    Apobec3provided by MGI
    Official Full Name
    apolipoprotein B mRNA editing enzyme, catalytic polypeptide 3provided by MGI
    Primary source
    MGI:MGI:1933111
    See related
    Ensembl:ENSMUSG00000009585 AllianceGenome:MGI:1933111
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
    Also known as
    Arp3; Rfv3; Cem15; Apobec; Gm20117
    Summary
    Predicted to enable several functions, including cytidine deaminase activity; identical protein binding activity; and zinc ion binding activity. Involved in negative regulation of viral genome replication and retrotransposon silencing. Acts upstream of or within hematopoietic progenitor cell differentiation; regulation of defense response to virus; and regulation of viral life cycle. Located in cytoplasm. Is expressed in several structures, including alimentary system; brain; genitourinary system; heart; and sensory organ. Orthologous to several human genes including APOBEC3B (apolipoprotein B mRNA editing enzyme catalytic subunit 3B); APOBEC3D (apolipoprotein B mRNA editing enzyme catalytic subunit 3D); and APOBEC3F (apolipoprotein B mRNA editing enzyme catalytic subunit 3F). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Ubiquitous expression in spleen adult (RPKM 21.8), mammary gland adult (RPKM 13.9) and 28 other tissues See more
    Orthologs
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    See Apobec3 in Genome Data Viewer
    Location:
    15 E1; 15 37.85 cM
    Exon count:
    15
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 15 NC_000081.7 (79774620..79802419)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 15 NC_000081.6 (79892058..79918218)

    Chromosome 15 - NC_000081.7Genomic Context describing neighboring genes Neighboring gene neuronal pentraxin chromo domain Neighboring gene chromobox 6 Neighboring gene predicted gene 10856 Neighboring gene STARR-seq mESC enhancer starr_39199 Neighboring gene RIKEN cDNA D730005E14 gene Neighboring gene STARR-positive B cell enhancer ABC_E7391 Neighboring gene STARR-positive B cell enhancer ABC_E4141 Neighboring gene STARR-positive B cell enhancer ABC_E3147 Neighboring gene STARR-seq mESC enhancer starr_39200 Neighboring gene STARR-seq mESC enhancer starr_39204 Neighboring gene STARR-positive B cell enhancer ABC_E7392 Neighboring gene STARR-positive B cell enhancer mm9_chr15:79765174-79765475 Neighboring gene chromobox 7 Neighboring gene STARR-positive B cell enhancer ABC_E9420 Neighboring gene VISTA enhancer mm570 Neighboring gene STARR-seq mESC enhancer starr_39213 Neighboring gene predicted gene, 53903 Neighboring gene microRNA 7213 Neighboring gene platelet derived growth factor, B polypeptide

    Genomic regions, transcripts, and products

    Expression

    • Project title: Mouse ENCODE transcriptome data
    • Description: RNA profiling data sets generated by the Mouse ENCODE project.
    • BioProject: PRJNA66167
    • Publication: PMID 25409824
    • Analysis date: n/a

    Bibliography

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Variation

    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Clone Names

    • MGC7002

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables RNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables RNA binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables cytidine deaminase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables cytidine deaminase activity ISO
    Inferred from Sequence Orthology
    more info
     
    enables hydrolase activity IEA
    Inferred from Electronic Annotation
    more info
     
    enables identical protein binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables zinc ion binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables zinc ion binding ISO
    Inferred from Sequence Orthology
    more info
     
    Component Evidence Code Pubs
    is_active_in P-body IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in P-body ISO
    Inferred from Sequence Orthology
    more info
     
    is_active_in cytoplasm IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in cytoplasm IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in cytoplasm ISO
    Inferred from Sequence Orthology
    more info
     
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
     
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
     
    part_of ribonucleoprotein complex ISO
    Inferred from Sequence Orthology
    more info
     

    General protein information

    Preferred Names
    DNA dC->dU-editing enzyme APOBEC-3
    Names
    apolipoprotein B editing complex 3
    apolipoprotein B mRNA-editing complex 3
    recovery from Friend virus 3
    NP_001153887.1
    NP_001333970.1
    NP_084531.2
    XP_006521616.1
    XP_017172295.1
    XP_017172297.1
    XP_036015533.1

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    RefSeqs maintained independently of Annotated Genomes

    These reference sequences exist independently of genome builds. Explain

    These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

    mRNA and Protein(s)

    1. NM_001160415.1NP_001153887.1  DNA dC->dU-editing enzyme APOBEC-3 isoform 1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) encodes the longer isoform (1).
      Source sequence(s)
      AC113595
      Consensus CDS
      CCDS49669.1
      UniProtKB/Swiss-Prot
      H3BJL0, Q8C7L0, Q8C8V7, Q99J72
      UniProtKB/TrEMBL
      E9QMH1
      Related
      ENSMUSP00000105249.4, ENSMUST00000109620.10
      Conserved Domains (3) summary
      cd01283
      Location:35141
      cytidine_deaminase; Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on ...
      pfam05240
      Location:137182
      APOBEC_C; APOBEC-like C-terminal domain
      pfam08210
      Location:26195
      APOBEC_N; APOBEC-like N-terminal domain
    2. NM_001347041.1NP_001333970.1  DNA dC->dU-editing enzyme APOBEC-3 isoform 3

      Status: VALIDATED

      Source sequence(s)
      AC113595
      Consensus CDS
      CCDS84179.1
      UniProtKB/TrEMBL
      Q3TI69
      Related
      ENSMUSP00000023054.8, ENSMUST00000023054.14
      Conserved Domains (2) summary
      pfam18772
      Location:199
      APOBEC2
      pfam18782
      Location:102264
      NAD2; Novel AID APOBEC clade 2
    3. NM_030255.3NP_084531.2  DNA dC->dU-editing enzyme APOBEC-3 isoform 2

      See identical proteins and their annotated locations for NP_084531.2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) lacks an alternate in-frame exon in the coding region, compared to variant 1. The encoded isoform (2)is shorter than isoform 1.
      Source sequence(s)
      AA288216, AK049256, AK153719, BY228556
      Consensus CDS
      CCDS27654.1
      UniProtKB/TrEMBL
      B5T0I9, Q3U5C5
      Related
      ENSMUSP00000132391.2, ENSMUST00000165537.8
      Conserved Domains (3) summary
      cd01283
      Location:35141
      cytidine_deaminase; Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on ...
      pfam05240
      Location:137182
      APOBEC_C; APOBEC-like C-terminal domain
      pfam08210
      Location:26195
      APOBEC_N; APOBEC-like N-terminal domain

    RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCm39 C57BL/6J

    Genomic

    1. NC_000081.7 Reference GRCm39 C57BL/6J

      Range
      79774620..79802419
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_036159640.1XP_036015533.1  DNA dC->dU-editing enzyme APOBEC-3 isoform X2

      UniProtKB/TrEMBL
      Q3TI69
      Conserved Domains (2) summary
      pfam18772
      Location:199
      APOBEC2
      pfam18782
      Location:102264
      NAD2; Novel AID APOBEC clade 2
    2. XM_017316808.3XP_017172297.1  DNA dC->dU-editing enzyme APOBEC-3 isoform X2

      UniProtKB/TrEMBL
      Q3TI69
      Conserved Domains (2) summary
      pfam18772
      Location:199
      APOBEC2
      pfam18782
      Location:102264
      NAD2; Novel AID APOBEC clade 2
    3. XM_017316806.3XP_017172295.1  DNA dC->dU-editing enzyme APOBEC-3 isoform X1

      UniProtKB/TrEMBL
      B5T0I9
      Related
      ENSMUSP00000135079.2, ENSMUST00000177098.8
      Conserved Domains (2) summary
      pfam18772
      Location:32209
      APOBEC2
      pfam18782
      Location:212374
      NAD2; Novel AID APOBEC clade 2
    4. XM_006521553.5XP_006521616.1  DNA dC->dU-editing enzyme APOBEC-3 isoform X3

      Conserved Domains (1) summary
      pfam18782
      Location:54216
      NAD2; Novel AID APOBEC clade 2

    RNA

    1. XR_001781583.2 RNA Sequence