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    Apex1 apurinic/apyrimidinic endodeoxyribonuclease 1 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 79116, updated on 27-Nov-2024

    Summary

    Official Symbol
    Apex1provided by RGD
    Official Full Name
    apurinic/apyrimidinic endodeoxyribonuclease 1provided by RGD
    Primary source
    RGD:2126
    See related
    EnsemblRapid:ENSRNOG00000009663 AllianceGenome:RGD:2126
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Also known as
    APE; Apex; REF-1
    Summary
    Enables NF-kappaB binding activity and RNA endonuclease activity. Involved in several processes, including cellular response to Thyroid stimulating hormone; cellular response to cAMP; and positive regulation of G1/S transition of mitotic cell cycle. Part of transcription regulator complex. Biomarker of brain ischemia; hepatocellular carcinoma; lung disease; status epilepticus; and visual epilepsy. Human ortholog(s) of this gene implicated in artery disease (multiple); breast cancer; female reproductive organ cancer (multiple); spina bifida; and urinary bladder cancer. Orthologous to human APEX1 (apurinic/apyrimidinic endodeoxyribonuclease 1). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in Adrenal (RPKM 361.2), Testes (RPKM 265.0) and 9 other tissues See more
    Orthologs
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    See Apex1 in Genome Data Viewer
    Location:
    15p14
    Exon count:
    5
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 15 NC_086033.1 (26618146..26620330)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 15 NC_051350.1 (24144595..24146785)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 15 NC_005114.4 (27849943..27852083)

    Chromosome 15 - NC_086033.1Genomic Context describing neighboring genes Neighboring gene kelch-like family member 33 Neighboring gene U6 spliceosomal RNA Neighboring gene O-sialoglycoprotein endopeptidase Neighboring gene phosphatidylinositol-4,5-bisphosphate 4-phosphatase 1 Neighboring gene purine nucleoside phosphorylase

    Genomic regions, transcripts, and products

    Expression

    • 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

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Pathways from PubChem

    General gene information

    Markers

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables 3'-5' exonuclease activity ISO
    Inferred from Sequence Orthology
    more info
     
    enables 3'-5' exonuclease activity ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    enables 3'-5'-DNA exonuclease activity IEA
    Inferred from Electronic Annotation
    more info
     
    enables 3'-5'-DNA exonuclease activity ISO
    Inferred from Sequence Orthology
    more info
     
    enables DNA binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables DNA binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables DNA binding ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    enables DNA-(abasic site) binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables DNA-(abasic site) binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables DNA-(abasic site) binding ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    enables DNA-(apurinic or apyrimidinic site) endonuclease activity IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables DNA-(apurinic or apyrimidinic site) endonuclease activity ISO
    Inferred from Sequence Orthology
    more info
     
    enables DNA-(apurinic or apyrimidinic site) endonuclease activity ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    enables NF-kappaB binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables RNA binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables RNA endonuclease activity IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables chromatin DNA binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables chromatin DNA binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables chromatin DNA binding ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    enables class II DNA-(apurinic or apyrimidinic site) endonuclease activity IEA
    Inferred from Electronic Annotation
    more info
     
    enables class II DNA-(apurinic or apyrimidinic site) endonuclease activity ISO
    Inferred from Sequence Orthology
    more info
     
    enables class II DNA-(apurinic or apyrimidinic site) endonuclease activity ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    enables damaged DNA binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables damaged DNA binding ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    enables double-stranded DNA 3'-5' DNA exonuclease activity IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables double-stranded DNA exodeoxyribonuclease activity IEA
    Inferred from Electronic Annotation
    more info
     
    enables double-stranded DNA exodeoxyribonuclease activity ISO
    Inferred from Sequence Orthology
    more info
     
    enables double-stranded telomeric DNA binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables double-stranded telomeric DNA binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables endonuclease activity IEA
    Inferred from Electronic Annotation
    more info
     
    enables endonuclease activity ISO
    Inferred from Sequence Orthology
    more info
     
    enables exonuclease activity IEA
    Inferred from Electronic Annotation
    more info
     
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables metal ion binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables metal ion binding ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    enables oxidoreductase activity IEA
    Inferred from Electronic Annotation
    more info
     
    enables oxidoreductase activity ISO
    Inferred from Sequence Orthology
    more info
     
    enables oxidoreductase activity ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    enables phosphodiesterase activity, acting on 3'-phosphoglycolate-terminated DNA strands IEA
    Inferred from Electronic Annotation
    more info
     
    enables phosphodiesterase activity, acting on 3'-phosphoglycolate-terminated DNA strands ISO
    Inferred from Sequence Orthology
    more info
     
    enables phosphoric diester hydrolase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables phosphoric diester hydrolase activity ISO
    Inferred from Sequence Orthology
    more info
     
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables protein-containing complex binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables site-specific endodeoxyribonuclease activity, specific for altered base IEA
    Inferred from Electronic Annotation
    more info
     
    enables site-specific endodeoxyribonuclease activity, specific for altered base ISO
    Inferred from Sequence Orthology
    more info
     
    enables site-specific endodeoxyribonuclease activity, specific for altered base ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    enables transcription coactivator activity IEA
    Inferred from Electronic Annotation
    more info
     
    enables transcription coactivator activity ISO
    Inferred from Sequence Orthology
    more info
     
    enables transcription coactivator activity ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    Process Evidence Code Pubs
    involved_in DNA catabolic process IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in DNA catabolic process ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in DNA recombination IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in DNA repair IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in DNA repair ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in DNA repair ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in base-excision repair IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in base-excision repair ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in cell redox homeostasis IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within cell redox homeostasis ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in cellular response to Thyroid stimulating hormone IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    involved_in cellular response to cAMP IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    involved_in cellular response to hydrogen peroxide IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in cellular response to hydrogen peroxide IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    involved_in negative regulation of smooth muscle cell migration IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in positive regulation of G1/S transition of mitotic cell cycle IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in positive regulation of gene expression via chromosomal CpG island demethylation IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in positive regulation of gene expression via chromosomal CpG island demethylation ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of gene expression via chromosomal CpG island demethylation ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in positive regulation of transcription by RNA polymerase II IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in positive regulation of transcription by RNA polymerase II ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in regulation of apoptotic process IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in regulation of apoptotic process ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in regulation of apoptotic process ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in regulation of mRNA stability IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in regulation of mRNA stability ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in regulation of mRNA stability ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in response to xenobiotic stimulus IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    involved_in telomere maintenance ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in telomere maintenance via base-excision repair IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in telomere maintenance via base-excision repair ISO
    Inferred from Sequence Orthology
    more info
     
    Component Evidence Code Pubs
    located_in centrosome IEA
    Inferred from Electronic Annotation
    more info
     
    located_in centrosome ISO
    Inferred from Sequence Orthology
    more info
     
    located_in cytoplasm ISO
    Inferred from Sequence Orthology
    more info
     
    located_in endoplasmic reticulum IEA
    Inferred from Electronic Annotation
    more info
     
    located_in mitochondrion IEA
    Inferred from Electronic Annotation
    more info
     
    located_in mitochondrion ISO
    Inferred from Sequence Orthology
    more info
     
    located_in nuclear speck IEA
    Inferred from Electronic Annotation
    more info
     
    located_in nuclear speck ISO
    Inferred from Sequence Orthology
    more info
     
    located_in nuclear speck ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    located_in nucleolus IEA
    Inferred from Electronic Annotation
    more info
     
    located_in nucleolus ISO
    Inferred from Sequence Orthology
    more info
     
    located_in nucleolus ISS
    Inferred from Sequence or Structural Similarity
    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 IEA
    Inferred from Electronic Annotation
    more info
     
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
     
    located_in nucleus ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    located_in perinuclear region of cytoplasm IEA
    Inferred from Electronic Annotation
    more info
     
    located_in perinuclear region of cytoplasm ISO
    Inferred from Sequence Orthology
    more info
     
    located_in perinuclear region of cytoplasm ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    part_of transcription regulator complex IDA
    Inferred from Direct Assay
    more info
    PubMed 

    General protein information

    Preferred Names
    DNA repair nuclease/redox regulator APEX1; DNA-(apurinic or apyrimidinic site) endonuclease
    Names
    AP endonuclease 1
    APEN
    APEX nuclease (multifunctional DNA repair enzyme) 1
    APEX nuclease 1
    DNA-(apurinic or apyrimidinic site) lyase
    apurinic/apyrimidinic endonuclease 1
    redox factor-1
    NP_077062.1
    XP_006251975.1
    XP_017455294.1
    XP_063130745.1
    XP_063130746.1
    XP_063130747.1

    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_024148.1NP_077062.1  DNA repair nuclease/redox regulator APEX1

      See identical proteins and their annotated locations for NP_077062.1

      Status: PROVISIONAL

      Source sequence(s)
      D44495
      UniProtKB/Swiss-Prot
      P43138, Q548N9
      UniProtKB/TrEMBL
      A6KEC1, A6KEC2
      Related
      ENSRNOP00000068673.2, ENSRNOT00000087958.3
      Conserved Domains (1) summary
      cd09087
      Location:61315
      Ape1-like_AP-endo; Human Ape1-like subfamily of the ExoIII family apurinic/apyrimidinic (AP) endonucleases

    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_086033.1 Reference GRCr8

      Range
      26618146..26620330
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006251913.3XP_006251975.1  DNA-(apurinic or apyrimidinic site) endonuclease isoform X2

      See identical proteins and their annotated locations for XP_006251975.1

      UniProtKB/Swiss-Prot
      P43138, Q548N9
      UniProtKB/TrEMBL
      A6KEC1, A6KEC2
      Conserved Domains (1) summary
      cd09087
      Location:61315
      Ape1-like_AP-endo; Human Ape1-like subfamily of the ExoIII family apurinic/apyrimidinic (AP) endonucleases
    2. XM_063274676.1XP_063130746.1  DNA-(apurinic or apyrimidinic site) endonuclease isoform X2

      UniProtKB/Swiss-Prot
      P43138, Q548N9
      UniProtKB/TrEMBL
      A6KEC1
    3. XM_063274675.1XP_063130745.1  DNA-(apurinic or apyrimidinic site) endonuclease isoform X1

    4. XM_063274677.1XP_063130747.1  DNA-(apurinic or apyrimidinic site) endonuclease isoform X3

      UniProtKB/TrEMBL
      A0A8L2Q612
      Related
      ENSRNOP00000013176.4, ENSRNOT00000013176.7
    5. XM_017599805.3XP_017455294.1  DNA-(apurinic or apyrimidinic site) endonuclease isoform X3

      UniProtKB/TrEMBL
      A0A8L2Q612, A0A8L2QZQ5