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

Gene ID: 393115, updated on 4-Jan-2025

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' DNA exonuclease 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, Jan 2025]
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
RS_2024_08 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 cold shock domain containing E1, RNA-binding Neighboring gene porcupine O-acyltransferase like

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) endonuclease 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) endonuclease 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: GCF_000002035.6-RS_2024_08

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

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