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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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