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Apobec3 apolipoprotein B mRNA editing enzyme catalytic subunit 3 [ Rattus norvegicus (Norway rat) ]

Gene ID: 315137, updated on 4-Jan-2025

Summary

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Official Symbol
Apobec3provided by RGD
Official Full Name
apolipoprotein B mRNA editing enzyme catalytic subunit 3provided by RGD
Primary source
RGD:1307800
See related
EnsemblRapid:ENSRNOG00000016852 AllianceGenome:RGD:1307800
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Rattus norvegicus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as
Apobec3b; Apobec3f
Summary
Predicted to enable RNA binding activity and cytidine deaminase activity. Predicted to be involved in several processes, including DNA cytosine deamination; defense response to symbiont; and negative regulation of macromolecule biosynthetic process. Predicted to act upstream of or within hematopoietic progenitor cell differentiation; regulation of defense response to virus; and regulation of viral life cycle. Predicted to be located in cytosol and nucleoplasm. Predicted to be active in P-body and nucleus. Orthologous to several human genes including 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, Jan 2025]
Expression
Biased expression in Spleen (RPKM 41.2), Thymus (RPKM 40.7) and 8 other tissues See more
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Genomic context

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See Apobec3 in Genome Data Viewer
Location:
7q34
Exon count:
8
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 7 NC_086025.1 (113314196..113333306)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 7 NC_051342.1 (111433789..111453032)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 7 NC_005106.4 (121108108..121128346)

Chromosome 7 - NC_086025.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC102547313 Neighboring gene uncharacterized LOC134479939 Neighboring gene uncharacterized LOC102547383 Neighboring gene U6 spliceosomal RNA Neighboring gene uncharacterized LOC120093692 Neighboring gene chromobox 7 Neighboring gene small nucleolar RNA U109

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
  • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
  • BioProject: PRJNA238328
  • Publication: PMID 24510058
  • Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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Related articles in PubMed

  1. Antibody-induced modulation of Friend virus cell surface antigens decreases virus production by persistent erythroleukemia cells: influence of the Rfv-3 gene. Chesebro B, et al. Proc Natl Acad Sci U S A, 1979 Nov. PMID 293683, Free PMC Article
  2. Hypermutation of ApoB mRNA by rat APOBEC-1 overexpression mimics APOBEC-3 hypermutation. Chen Z, et al. J Mol Biol, 2012 Apr 20. PMID 22326345, Free PMC Article
  3. Antiretroelement activity of APOBEC3H was lost twice in recent human evolution. OhAinle M, et al. Cell Host Microbe, 2008 Sep 11. PMID 18779051, Free PMC Article
  4. Ribonuclease L is not critical for innate restriction and adaptive immunity against Friend retrovirus infection. Li SX, et al. Virology, 2013 Aug 15. PMID 23725696, Free PMC Article
  5. APOBEC3A, APOBEC3B, and APOBEC3H haplotype 2 restrict human T-lymphotropic virus type 1. Ooms M, et al. J Virol, 2012 Jun. PMID 22457529, Free PMC Article

See all (15) citations in PubMed

GeneRIFs: Gene References Into Functions

General gene information

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Markers

Homology

Clone Names

  • MGC124783

Gene Ontology Provided by RGD

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 hydrolase activity IEA
Inferred from Electronic Annotation
more info
  
enables zinc ion binding IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
involved_in DNA cytosine deamination IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in DNA cytosine deamination ISO
Inferred from Sequence Orthology
more info
  
involved_in clearance of foreign intracellular DNA ISO
Inferred from Sequence Orthology
more info
  
involved_in cytidine to uridine editing IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in defense response to virus IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in defense response to virus ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within hematopoietic progenitor cell differentiation ISO
Inferred from Sequence Orthology
more info
  
involved_in innate immune response IEA
Inferred from Electronic Annotation
more info
  
involved_in negative regulation by host of viral genome replication ISO
Inferred from Sequence Orthology
more info
  
involved_in negative regulation of single stranded viral RNA replication via double stranded DNA intermediate IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in negative regulation of single stranded viral RNA replication via double stranded DNA intermediate ISO
Inferred from Sequence Orthology
more info
  
involved_in negative regulation of viral genome replication ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within regulation of defense response to virus ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within regulation of viral life cycle ISO
Inferred from Sequence Orthology
more info
  
involved_in transposable element silencing ISO
Inferred from Sequence Orthology
more info
  
involved_in transposable element silencing ISS
Inferred from Sequence or Structural Similarity
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 IEA
Inferred from Electronic Annotation
more info
  
is_active_in cytoplasm ISO
Inferred from Sequence Orthology
more info
  
located_in cytoplasm ISO
Inferred from Sequence Orthology
more info
  
located_in cytoplasm ISS
Inferred from Sequence or Structural Similarity
more info
  
located_in cytosol 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
  

General protein information

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Preferred Names
DNA dC->dU-editing enzyme APOBEC3
Names
apolipoprotein B editing complex 3
apolipoprotein B mRNA editing enzyme catalytic subunit 3B
apolipoprotein B mRNA editing enzyme, catalytic polypeptide-like 3B
apolipoprotein B mRNA editing enzyme, catalytic polypeptide-like 3F
probable DNA dC->dU-editing enzyme APOBEC3
NP_001028875.1
XP_008763937.1
XP_063119684.1
XP_063119685.1

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_001033703.2 → NP_001028875.1  DNA dC->dU-editing enzyme APOBEC3

    See identical proteins and their annotated locations for NP_001028875.1

    Status: VALIDATED

    Source sequence(s)
    JAXUCZ010000007
    UniProtKB/TrEMBL
    F7EWS7, Q3T1K0
    Related
    ENSRNOP00000034183.5, ENSRNOT00000037134.7
    Conserved Domains (3) summary
    cd01283
    Location:226 → 332
    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:141 → 186
    APOBEC_C; APOBEC-like C-terminal domain
    pfam08210
    Location:29 → 199
    APOBEC_N; APOBEC-like N-terminal domain

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

Reference GRCr8

Genomic

  1. NC_086025.1 Reference GRCr8

    Range
    113314196..113333306
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_063263614.1 → XP_063119684.1  DNA dC->dU-editing enzyme APOBEC3 isoform X1

    UniProtKB/TrEMBL
    F7EWS7

  2. XM_063263615.1 → XP_063119685.1  DNA dC->dU-editing enzyme APOBEC3 isoform X2

    UniProtKB/TrEMBL
    F7EWS7

  3. XM_008765715.4 → XP_008763937.1  DNA dC->dU-editing enzyme APOBEC3 isoform X3

    UniProtKB/TrEMBL
    F7EWS7
    Conserved Domains (3) summary
    cd01283
    Location:203 → 309
    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:118 → 163
    APOBEC_C; APOBEC-like C-terminal domain
    pfam08210
    Location:11 → 176
    APOBEC_N; APOBEC-like N-terminal domain
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
P60705.1 GenPept UniProtKB/Swiss-Prot:P60705

Gene LinkOut

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