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    apex2 APEX nuclease (apurinic/apyrimidinic endonuclease) 2 [ Danio rerio (zebrafish) ]

    Gene ID: 393115, updated on 27-Mar-2024

    Summary

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    Official Symbol
    apex2provided by ZNC
    Official Full Name
    APEX nuclease (apurinic/apyrimidinic endonuclease) 2provided by ZNC
    Primary source
    ZFIN:ZDB-GENE-040426-835
    See related
    Ensembl:ENSDARG00000008472 AllianceGenome:ZFIN:ZDB-GENE-040426-835
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Danio rerio
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
    Also known as
    zgc:55889
    Summary
    Predicted to enable DNA-(apurinic or apyrimidinic site) endonuclease activity; double-stranded DNA 3'-5' exodeoxyribonuclease activity; and phosphoric diester hydrolase activity. Predicted to be involved in base-excision repair. Predicted to act upstream of or within DNA repair. Predicted to be located in mitochondrion. Predicted to be active in nucleus. Orthologous to human APEX2 (apurinic/apyrimidinic endodeoxyribonuclease 2). [provided by Alliance of Genome Resources, Apr 2022]
    Orthologs
    human mouse all
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    Genomic context

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    See apex2 in Genome Data Viewer
    Location:
    chromosome: 8
    Exon count:
    6
    Annotation release Status Assembly Chr Location
    106 current GRCz11 (GCF_000002035.6) 8 NC_007119.7 (22510807..22514886, complement)
    105 previous assembly GRCz10 (GCF_000002035.5) 8 NC_007119.6 (22489568..22493647, complement)

    Chromosome 8 - NC_007119.7Genomic Context describing neighboring genes Neighboring gene si:ch211-261n11.8 Neighboring gene ligand dependent nuclear receptor interacting factor 1 Neighboring gene Ras association domain family member 11 Neighboring gene cold shock domain containing E1, RNA-binding

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
    • Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
    • BioProject: PRJEB1986
    • Analysis date: Fri Dec 8 19:48:10 2017

    Bibliography

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    Related articles in PubMed

    1. Base excision repair in early zebrafish development: evidence for DNA polymerase switching and standby AP endonuclease activity. Fortier S, et al. Biochemistry, 2009 Jun 16. PMID 19374445, Free PMC Article
    2. Tdp1 protects from topoisomerase 1-mediated chromosomal breaks in adult zebrafish but is dispensable during larval development. Zaksauskaite R, et al. Sci Adv, 2021 Jan. PMID 33514542, Free PMC Article
    3. Imbalanced mitochondrial function provokes heterotaxy via aberrant ciliogenesis. Burkhalter MD, et al. J Clin Invest, 2019 May 16. PMID 31094706, Free PMC Article
    4. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article
    5. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

    See all (6) citations in PubMed

    GeneRIFs: Gene References Into Functions

    General gene information

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    Homology

    Clone Names

    • MGC55889, MGC174107

    Gene Ontology Provided by ZFIN

    Function Evidence Code Pubs
    enables DNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables DNA-(apurinic or apyrimidinic site) endonuclease activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables catalytic activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables double-stranded DNA 3'-5' DNA exonuclease activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables endonuclease activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables hydrolase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables hydrolase activity, acting on ester bonds IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables lyase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables nuclease activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables phosphoric diester hydrolase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables zinc ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within DNA damage response IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within DNA repair IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in base-excision repair IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    located_in cytoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in mitochondrion IEA
    Inferred from Electronic Annotation
    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
    		  

    General protein information

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    Preferred Names
    DNA-(apurinic or apyrimidinic site) lyase 2
    NP_956440.1

    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_200146.1 → NP_956440.1  DNA-(apurinic or apyrimidinic site) lyase 2

      See identical proteins and their annotated locations for NP_956440.1

      Status: PROVISIONAL

      Source sequence(s)
      BC044527
      UniProtKB/TrEMBL
      Q803D4
      Related
      ENSDARP00000021896.6, ENSDART00000021514.7
      Conserved Domains (2) summary
      cd09088
      Location:2 → 311
      Ape2-like_AP-endo; Human Ape2-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases
      pfam06839
      Location:506 → 557
      zf-GRF; GRF zinc finger

    RefSeqs of Annotated Genomes: Danio rerio Annotation Release 106 details...Open this link in a new tab

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

    Reference GRCz11 Primary Assembly

    Genomic

    1. NC_007119.7 Reference GRCz11 Primary Assembly

      Range
      22510807..22514886 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein Strain
    Heading Accession and Version

    Gene LinkOut

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