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    Apobec1 apolipoprotein B mRNA editing enzyme, catalytic polypeptide 1 [ Mus musculus (house mouse) ]

    Gene ID: 11810, updated on 2-Nov-2024

    Summary

    Official Symbol
    Apobec1provided by MGI
    Official Full Name
    apolipoprotein B mRNA editing enzyme, catalytic polypeptide 1provided by MGI
    Primary source
    MGI:MGI:103298
    See related
    Ensembl:ENSMUSG00000040613 AllianceGenome:MGI:103298
    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
    Cdar1; APOBEC-1
    Summary
    Enables mRNA 3'-UTR AU-rich region binding activity. Involved in cytidine to uridine editing and positive regulation of gene expression via chromosomal CpG island demethylation. Acts upstream of or within several processes, including lipoprotein transport; mRNA stabilization; and negative regulation of triglyceride metabolic process. Predicted to be part of apolipoprotein B mRNA editing enzyme complex. Predicted to be active in cytoplasm and nucleus. Is expressed in early conceptus; genitourinary system; and liver. Orthologous to human APOBEC1 (apolipoprotein B mRNA editing enzyme catalytic subunit 1). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Broad expression in mammary gland adult (RPKM 5.7), spleen adult (RPKM 5.4) and 25 other tissues See more
    Orthologs
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    Genomic context

    See Apobec1 in Genome Data Viewer
    Location:
    6 F1; 6 57.68 cM
    Exon count:
    11
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 6 NC_000072.7 (122554755..122580068, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 6 NC_000072.6 (122577792..122603024, complement)

    Chromosome 6 - NC_000072.7Genomic Context describing neighboring genes Neighboring gene STARR-positive B cell enhancer ABC_E11336 Neighboring gene STARR-positive B cell enhancer ABC_E3677 Neighboring gene STARR-positive B cell enhancer ABC_E3678 Neighboring gene activation-induced cytidine deaminase Neighboring gene voltage-dependent anion channel 1 pseudogene Neighboring gene STARR-seq mESC enhancer starr_17230 Neighboring gene STARR-positive B cell enhancer ABC_E9101 Neighboring gene STARR-positive B cell enhancer ABC_E8128 Neighboring gene STARR-seq mESC enhancer starr_17234 Neighboring gene growth differentiation factor 3 Neighboring gene STARR-positive B cell enhancer mm9_chr6:122565848-122566149 Neighboring gene Dppa3 promoter region Neighboring gene developmental pluripotency-associated 3

    Genomic regions, transcripts, and products

    Expression

    • Project title: Mouse ENCODE transcriptome data 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)
    • Endonuclease-mediated (3) 
    • Gene trapped (3) 
    • Targeted (4)  1 citation

    Pathways from PubChem

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables RNA binding IBA
    Inferred from Biological aspect of Ancestor
    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 cytosine deaminase activity ISO
    Inferred from Sequence Orthology
    more info
     
    enables enzyme activator activity ISO
    Inferred from Sequence Orthology
    more info
     
    enables mRNA 3'-UTR AU-rich region binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables mRNA binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables protein domain specific binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables ribonucleoprotein complex binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables zinc ion binding IEA
    Inferred from Electronic Annotation
    more info
     
    Process Evidence Code Pubs
    involved_in DNA cytosine deamination ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in cytidine to uridine editing IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in cytidine to uridine editing IDA
    Inferred from Direct Assay
    more info
    PubMed 
    acts_upstream_of_or_within cytidine to uridine editing IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    acts_upstream_of_or_within cytidine to uridine editing IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in cytidine to uridine editing ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in defense response to virus ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within establishment of localization in cell IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    acts_upstream_of_or_within lipoprotein biosynthetic process IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    acts_upstream_of_or_within lipoprotein metabolic process IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within lipoprotein transport IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    acts_upstream_of_or_within mRNA modification IDA
    Inferred from Direct Assay
    more info
    PubMed 
    acts_upstream_of_or_within mRNA modification IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in mRNA modification ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in mRNA processing IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within mRNA stabilization IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in negative regulation of nuclear-transcribed mRNA catabolic process, nonsense-mediated decay ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within negative regulation of triglyceride metabolic process IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    involved_in positive regulation of gene expression via chromosomal CpG island demethylation IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in positive regulation of mRNA modification ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within regulation of cell population proliferation IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    involved_in response to calcium ion ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in response to ethanol ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within response to gamma radiation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in response to xenobiotic stimulus ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within triglyceride metabolic process IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    Component Evidence Code Pubs
    part_of apolipoprotein B mRNA editing enzyme complex IEA
    Inferred from Electronic Annotation
    more info
     
    part_of apolipoprotein B mRNA editing enzyme complex ISO
    Inferred from Sequence Orthology
    more info
     
    is_active_in cytoplasm IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in cytoplasm ISO
    Inferred from Sequence Orthology
    more info
     
    located_in cytoplasm ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    part_of mRNA editing complex NAS
    Non-traceable Author Statement
    more info
    PubMed 
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
     

    General protein information

    Preferred Names
    C->U-editing enzyme APOBEC-1
    Names
    apolipoprotein B editing complex 1
    mRNA(cytosine(6666)) deaminase 1
    NP_001127863.1
    NP_001396396.1
    NP_001396397.1
    NP_001396398.1
    NP_001396399.1
    NP_001396400.1
    NP_112436.1

    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_001134391.2NP_001127863.1  C->U-editing enzyme APOBEC-1 isoform a

      See identical proteins and their annotated locations for NP_001127863.1

      Status: VALIDATED

      Source sequence(s)
      AC158651
      Consensus CDS
      CCDS20498.1
      UniProtKB/Swiss-Prot
      P51908, Q99L67
      UniProtKB/TrEMBL
      Q3TLN2, Q3U9G8
      Related
      ENSMUSP00000108204.2, ENSMUST00000112585.8
      Conserved Domains (1) summary
      pfam18774
      Location:26159
      APOBEC4_like; APOBEC4-like -AID/APOBEC-deaminase
    2. NM_001409467.1NP_001396396.1  C->U-editing enzyme APOBEC-1 isoform a

      Status: VALIDATED

      Source sequence(s)
      AC158651
      UniProtKB/Swiss-Prot
      P51908, Q99L67
      UniProtKB/TrEMBL
      Q3U9G8
    3. NM_001409468.1NP_001396397.1  C->U-editing enzyme APOBEC-1 isoform a

      Status: VALIDATED

      Source sequence(s)
      AC158651
      UniProtKB/Swiss-Prot
      P51908, Q99L67
      UniProtKB/TrEMBL
      Q3U9G8
    4. NM_001409469.1NP_001396398.1  C->U-editing enzyme APOBEC-1 isoform a

      Status: VALIDATED

      Source sequence(s)
      AC158651
      UniProtKB/Swiss-Prot
      P51908, Q99L67
      UniProtKB/TrEMBL
      Q3U9G8
    5. NM_001409470.1NP_001396399.1  C->U-editing enzyme APOBEC-1 isoform a

      Status: VALIDATED

      Source sequence(s)
      AC158651
      UniProtKB/Swiss-Prot
      P51908, Q99L67
      UniProtKB/TrEMBL
      Q3U9G8
    6. NM_001409471.1NP_001396400.1  C->U-editing enzyme APOBEC-1 isoform b

      Status: VALIDATED

      Source sequence(s)
      AC158651
    7. NM_031159.4NP_112436.1  C->U-editing enzyme APOBEC-1 isoform a

      See identical proteins and their annotated locations for NP_112436.1

      Status: VALIDATED

      Source sequence(s)
      AC158651
      Consensus CDS
      CCDS20498.1
      UniProtKB/Swiss-Prot
      P51908, Q99L67
      UniProtKB/TrEMBL
      Q3TLN2, Q3U9G8
      Related
      ENSMUSP00000108205.2, ENSMUST00000112586.8
      Conserved Domains (1) summary
      pfam18774
      Location:26159
      APOBEC4_like; APOBEC4-like -AID/APOBEC-deaminase

    RNA

    1. NR_176849.1 RNA Sequence

      Status: VALIDATED

      Source sequence(s)
      AC158651
    2. NR_176850.1 RNA Sequence

      Status: VALIDATED

      Source sequence(s)
      AC158651

    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_000072.7 Reference GRCm39 C57BL/6J

      Range
      122554755..122580068 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)