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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

Gene LinkOut

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