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    dna2 DNA replication helicase/nuclease 2 [ Danio rerio (zebrafish) ]

    Gene ID: 559535, updated on 9-Dec-2024

    Summary

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    Official Symbol
    dna2provided by ZNC
    Official Full Name
    DNA replication helicase/nuclease 2provided by ZNC
    Primary source
    ZFIN:ZDB-GENE-090313-71
    See related
    Ensembl:ENSDARG00000078759 AllianceGenome:ZFIN:ZDB-GENE-090313-71
    Gene type
    protein coding
    RefSeq status
    MODEL
    Organism
    Danio rerio
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
    Also known as
    si:ch211-1n9.7
    Summary
    Predicted to enable 5'-flap endonuclease activity and RNA binding activity. Predicted to be involved in replication fork reversal. Predicted to act upstream of or within DNA repair and DNA replication. Predicted to be located in mitochondrion and nucleus. Predicted to be active in cytoplasm. Is expressed in ovary. Human ortholog(s) of this gene implicated in Seckel syndrome 8; autosomal dominant progressive external ophthalmoplegia with mitochondrial DNA deletions 6; isolated growth hormone deficiency type IA; and mitochondrial myopathy. Orthologous to human DNA2 (DNA replication helicase/nuclease 2). [provided by Alliance of Genome Resources, Dec 2024]
    Orthologs
    human mouse all
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    Genomic context

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    See dna2 in Genome Data Viewer
    Location:
    chromosome: 13
    Exon count:
    23
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 13 NC_007124.7 (22821728..22839769)
    105 previous assembly GRCz10 (GCF_000002035.5) 13 NC_007124.6 (22691247..22709333)

    Chromosome 13 - NC_007124.7Genomic Context describing neighboring genes Neighboring gene nuclear factor of kappa light polypeptide gene enhancer in B-cells 2 (p49/p100) Neighboring gene pleckstrin and Sec7 domain containing a Neighboring gene uncharacterized LOC137487396 Neighboring gene uncharacterized LOC100001713 Neighboring gene phenazine biosynthesis like protein domain containing Neighboring gene phenazine biosynthesis-like protein domain containing pseudogene Neighboring gene phenazine biosynthesis-like protein domain containing 2

    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. Genome-wide identification, characterization, and expression analysis of lineage-specific genes within zebrafish. Yang L, et al. BMC Genomics, 2013 Jan 31. PMID 23368736, Free PMC Article
    2. Evolution of complexity in the zebrafish synapse proteome. Bayés À, et al. Nat Commun, 2017 Mar 2. PMID 28252024, Free PMC Article
    3. RFX transcription factors are essential for hearing in mice. Elkon R, et al. Nat Commun, 2015 Oct 15. PMID 26469318, Free PMC Article
    4. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article
    5. Gene evolution and gene expression after whole genome duplication in fish: the PhyloFish database. Pasquier J, et al. BMC Genomics, 2016 May 18. PMID 27189481, Free PMC Article

    GeneRIFs: Gene References Into Functions

    General gene information

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    Homology

    Gene Ontology Provided by ZFIN

    Function Evidence Code Pubs
    enables 4 iron, 4 sulfur cluster binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables 5'-flap endonuclease activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables ATP binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables DNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables RNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables catalytic activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables helicase 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 iron-sulfur cluster binding 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 nucleotide binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables single-stranded DNA helicase activity 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
    		  
    acts_upstream_of_or_within DNA replication IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in DNA replication, Okazaki fragment processing IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in replication fork reversal IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    is_active_in cytoplasm IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in mitochondrion IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    DNA2-like helicase; DNA replication ATP-dependent helicase/nuclease DNA2
    XP_021329958.1
    XP_021336509.1
    XP_687974.6

    NCBI Reference Sequences (RefSeq)

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    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_007124.7 Reference GRCz11 Primary Assembly

      Range
      22821728..22839769
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_021480834.2 → XP_021336509.1  DNA replication ATP-dependent helicase/nuclease DNA2 isoform X1

      UniProtKB/TrEMBL
      A0A8M9PSF9, B8A5D8
      Related
      ENSDARP00000112574.2, ENSDART00000144094.4
      Conserved Domains (3) summary
      pfam08696
      Location:391 → 602
      Dna2; DNA replication factor Dna2
      cl00641
      Location:579 → 721
      Cas4_I-A_I-B_I-C_I-D_II-B; CRISPR/Cas system-associated protein Cas4
      cl26261
      Location:788 → 1354
      AAA_11; AAA domain

    Reference GRCz11 ALT_DRER_TU_1

    Genomic

    1. NW_018394884.1 Reference GRCz11 ALT_DRER_TU_1

      Range
      270586..288583
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_682882.9 → XP_687974.6  DNA replication ATP-dependent helicase/nuclease DNA2 isoform X2

      UniProtKB/TrEMBL
      A0A8N7TD02
      Conserved Domains (3) summary
      pfam08696
      Location:388 → 599
      Dna2; DNA replication factor Dna2
      cl00641
      Location:576 → 718
      Cas4_I-A_I-B_I-C_I-D_II-B; CRISPR/Cas system-associated protein Cas4
      cl26261
      Location:785 → 1351
      AAA_11; AAA domain

    Reference GRCz11 ALT_DRER_TU_2

    Genomic

    1. NW_018395309.1 Reference GRCz11 ALT_DRER_TU_2

      Range
      5821..23862
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_021474283.2 → XP_021329958.1  DNA replication ATP-dependent helicase/nuclease DNA2 isoform X1

      UniProtKB/TrEMBL
      A0A8M9PSF9, B8A5D8
      Conserved Domains (3) summary
      pfam08696
      Location:391 → 602
      Dna2; DNA replication factor Dna2
      cl00641
      Location:579 → 721
      Cas4_I-A_I-B_I-C_I-D_II-B; CRISPR/Cas system-associated protein Cas4
      cl26261
      Location:788 → 1354
      AAA_11; AAA domain
    Nucleotide Protein Strain
    Heading Accession and Version

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