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    xpa xeroderma pigmentosum, complementation group A [ Danio rerio (zebrafish) ]

    Gene ID: 393443, updated on 9-Dec-2024

    Summary

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    Official Symbol
    xpaprovided by ZNC
    Official Full Name
    xeroderma pigmentosum, complementation group Aprovided by ZNC
    Primary source
    ZFIN:ZDB-GENE-040426-1205
    See related
    Ensembl:ENSDARG00000038114 AllianceGenome:ZFIN:ZDB-GENE-040426-1205
    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:63640
    Summary
    Predicted to enable damaged DNA binding activity. Predicted to be involved in DNA repair. Predicted to act upstream of or within nucleotide-excision repair. Predicted to be located in nucleus. Predicted to be part of nucleotide-excision repair factor 1 complex. Is expressed in liver and telencephalon. Human ortholog(s) of this gene implicated in xeroderma pigmentosum and xeroderma pigmentosum group A. Orthologous to human XPA (XPA, DNA damage recognition and repair factor). [provided by Alliance of Genome Resources, Dec 2024]
    Orthologs
    human mouse all
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    Genomic context

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    See xpa in Genome Data Viewer
    Location:
    chromosome: 1
    Exon count:
    9
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 1 NC_007112.7 (12068753..12097812)
    105 previous assembly GRCz10 (GCF_000002035.5) 1 NC_007112.6 (11381600..11411012)

    Chromosome 1 - NC_007112.7Genomic Context describing neighboring genes Neighboring gene phospholipase A2, group XIIA Neighboring gene uncharacterized LOC110439783 Neighboring gene microsomal triglyceride transfer protein Neighboring gene serine peptidase inhibitor, Kazal type 4

    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. Activation of the nucleotide excision repair pathway by crude oil exposure: A translational study from model organisms to the Hebei Spirit Oil Spill Cohort. Kim Y, et al. Environ Pollut, 2019 Nov. PMID 31454576
    2. Impact of environmental estrogens on nucleotide excision repair gene expression in embryonic zebrafish. Notch EG, et al. Comp Biochem Physiol C Toxicol Pharmacol, 2013 May. PMID 23506788
    3. Cadmium sulfate and CdTe-quantum dots alter DNA repair in zebrafish (Danio rerio) liver cells. Tang S, et al. Toxicol Appl Pharmacol, 2013 Oct 15. PMID 23770381
    4. Wastewater treatment effluent alters nucleotide excision repair in zebrafish (Danio rerio). Notch EG, et al. Comp Biochem Physiol C Toxicol Pharmacol, 2009 Aug. PMID 19467346
    5. 17alpha-Ethinylestradiol hinders nucleotide excision repair in zebrafish liver cells. Notch EG, et al. Aquat Toxicol, 2009 Dec 13. PMID 19237207

    See all (14) citations in PubMed

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Clone Names

    • MGC63640

    Gene Ontology Provided by ZFIN

    Function Evidence Code Pubs
    enables DNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables damaged DNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables damaged DNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables metal 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 UV-damage excision repair IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in base-excision repair IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within nucleotide-excision repair IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in nucleotide-excision repair involved in interstrand cross-link repair IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in nucleotide-excision repair, DNA damage recognition IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    part_of nucleotide-excision repair factor 1 complex 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 repair protein complementing XP-A cells

    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_200471.1 → NP_956765.1  DNA repair protein complementing XP-A cells

      See identical proteins and their annotated locations for NP_956765.1

      Status: PROVISIONAL

      Source sequence(s)
      BC055179
      UniProtKB/TrEMBL
      Q7SY02
      Related
      ENSDARP00000055565.5, ENSDART00000055566.6
      Conserved Domains (4) summary
      TIGR00598
      Location:107 → 265
      rad14; DNA repair protein
      pfam01286
      Location:107 → 135
      XPA_N; XPA protein N-terminal
      pfam05181
      Location:137 → 188
      XPA_C; XPA protein C-terminus
      pfam15232
      Location:401 → 467
      DUF4585; Domain of unknown function (DUF4585)

    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_007112.7 Reference GRCz11 Primary Assembly

      Range
      12068753..12097812
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_009306421.4 → XP_009304696.1  DNA repair protein complementing XP-A cells isoform X1

      See identical proteins and their annotated locations for XP_009304696.1

      UniProtKB/TrEMBL
      A0A8M3AY35
      Conserved Domains (3) summary
      TIGR00598
      Location:107 → 277
      rad14; DNA repair protein
      pfam01286
      Location:107 → 135
      XPA_N; XPA protein N-terminal
      pfam05181
      Location:137 → 188
      XPA_C; XPA protein C-terminus

    2. XM_005159814.5 → XP_005159871.1  DNA repair protein complementing XP-A cells isoform X1

      See identical proteins and their annotated locations for XP_005159871.1

      UniProtKB/TrEMBL
      A0A8M3AY35
      Conserved Domains (3) summary
      TIGR00598
      Location:107 → 277
      rad14; DNA repair protein
      pfam01286
      Location:107 → 135
      XPA_N; XPA protein N-terminal
      pfam05181
      Location:137 → 188
      XPA_C; XPA protein C-terminus

    3. XM_009306424.4 → XP_009304699.1  DNA repair protein complementing XP-A cells isoform X2

      UniProtKB/TrEMBL
      A0A8M3BDZ6
      Conserved Domains (3) summary
      TIGR00598
      Location:106 → 276
      rad14; DNA repair protein
      pfam01286
      Location:106 → 134
      XPA_N; XPA protein N-terminal
      pfam05181
      Location:136 → 187
      XPA_C; XPA protein C-terminus
    Nucleotide Protein
    Heading Accession and Version

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