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

Gene ID: 11810, updated on 18-Apr-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 DNA demethylation and negative regulation of DNA methylation-dependent heterochromatin assembly. Acts upstream of or within several processes, including RNA modification; lipoprotein transport; and mRNA stabilization. Predicted to be active in cytoplasm and nucleus. Is expressed in early conceptus and genitourinary system. Orthologous to human APOBEC1 (apolipoprotein B mRNA editing enzyme catalytic subunit 1). [provided by Alliance of Genome Resources, Apr 2022]
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

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
  • 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) 
  • Targeted (4)  1 citation
  • Gene trapped (3) 

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 catalytic activity IEA
Inferred from Electronic Annotation
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 hydrolase activity IEA
Inferred from Electronic Annotation
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 metal ion binding IEA
Inferred from Electronic Annotation
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 DNA demethylation IBA
Inferred from Biological aspect of Ancestor
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
 
acts_upstream_of_or_within 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 DNA demethylation NAS
Non-traceable Author Statement
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 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
 
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)

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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)