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

    Gene ID: 315137, updated on 9-Dec-2024

    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; cytidine to uridine editing; and defense response to symbiont. 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, Dec 2024]
    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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