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    ercc2 excision repair cross-complementation group 2 [ Danio rerio (zebrafish) ]

    Gene ID: 393900, updated on 2-Nov-2024

    Summary

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    Official Symbol
    ercc2provided by ZNC
    Official Full Name
    excision repair cross-complementation group 2provided by ZNC
    Primary source
    ZFIN:ZDB-GENE-040426-997
    See related
    Ensembl:ENSDARG00000021985 AllianceGenome:ZFIN:ZDB-GENE-040426-997
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Danio rerio
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
    Also known as
    XPD; zgc:56365
    Summary
    Predicted to enable DNA helicase activity and damaged DNA binding activity. Acts upstream of or within endodermal digestive tract morphogenesis. Predicted to be located in nucleolus. Predicted to be active in nucleus. Is expressed in several structures, including digestive system; female organism; gonad; male organism; and precaudal vertebra. Human ortholog(s) of this gene implicated in several diseases, including acoustic neuroma; acquired immunodeficiency syndrome; carcinoma (multiple); hematologic cancer (multiple); and xeroderma pigmentosum (multiple). Orthologous to human ERCC2 (ERCC excision repair 2, TFIIH core complex helicase subunit). [provided by Alliance of Genome Resources, Nov 2024]
    Orthologs
    human mouse all
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    Genomic context

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    See ercc2 in Genome Data Viewer
    Location:
    chromosome: 15
    Exon count:
    23
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 15 NC_007126.7 (23680018..23692359, complement)
    105 previous assembly GRCz10 (GCF_000002035.5) 15 NC_007126.6 (23744753..23757094, complement)

    Chromosome 15 - NC_007126.7Genomic Context describing neighboring genes Neighboring gene creatine kinase, muscle b Neighboring gene kinesin light chain 3 Neighboring gene zgc:154093 Neighboring gene zinc finger CCCH-type containing 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 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. Cloning, characterization and analysis of the 5' regulatory region of zebrafish xpd gene. Silva IA, et al. Comp Biochem Physiol B Biochem Mol Biol, 2015 Jul. PMID 25868627
    2. Molecular cloning and expression analysis of xpd from zebrafish (Danio rerio). Silva IA, et al. Mol Biol Rep, 2012 May. PMID 22187342
    3. 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
    4. 17alpha-Ethinylestradiol hinders nucleotide excision repair in zebrafish liver cells. Notch EG, et al. Aquat Toxicol, 2009 Dec 13. PMID 19237207
    5. 17alpha-Ethinylestradiol decreases expression of multiple hepatic nucleotide excision repair genes in zebrafish (Danio rerio). Notch EG, et al. Aquat Toxicol, 2007 Oct 15. PMID 17662478

    See all (16) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. the regulation and expression of XPD
      Title: Cloning, characterization and analysis of the 5' regulatory region of zebrafish xpd gene.
    2. The zebrafish cDNA encoding xpd was isolated and examined its spatial-temporal expression during early development as well as its tissue distribution in adult zebrafish.
      Title: Molecular cloning and expression analysis of xpd from zebrafish (Danio rerio).
    Submit: New GeneRIF Correction

    Pathways from PubChem

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    General gene information

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    Markers

    Homology

    Clone Names

    • MGC56365

    Gene Ontology Provided by ZFIN

    Function Evidence Code Pubs
    enables ATP binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables DNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables DNA helicase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables DNA helicase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables damaged DNA binding IBA
    Inferred from Biological aspect of Ancestor
    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 acid anhydrides, in phosphorus-containing anhydrides IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables nucleic acid binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables nucleotide binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within endodermal digestive tract morphogenesis IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within nucleobase-containing compound metabolic process IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within nucleotide-excision repair IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in positive regulation of mitotic recombination IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in transcription by RNA polymerase II IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    located_in nucleolus IC
    Inferred by Curator
    more info
    		 PubMed 
    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
    general transcription and DNA repair factor IIH helicase subunit XPD
    Names
    excision repair cross-complementing rodent repair deficiency, complementation group 2
    NP_957220.2

    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_200926.2 → NP_957220.2  general transcription and DNA repair factor IIH helicase subunit XPD

      See identical proteins and their annotated locations for NP_957220.2

      Status: VALIDATED

      Source sequence(s)
      CR855332, EH550017, EH589655, EH607129
      UniProtKB/TrEMBL
      F1Q5E7, H8ZIW8
      Related
      ENSDARP00000114026.1, ENSDART00000141618.2
      Conserved Domains (4) summary
      smart00488
      Location:8 → 278
      DEXDc2; DEAD-like helicases superfamily
      smart00491
      Location:542 → 686
      HELICc2; helicase superfamily c-terminal domain
      TIGR00604
      Location:7 → 708
      rad3; DNA repair helicase (rad3)
      pfam06777
      Location:270 → 413
      HBB; Helical and beta-bridge domain

    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_007126.7 Reference GRCz11 Primary Assembly

      Range
      23680018..23692359 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein Strain
    Heading Accession and Version

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