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

Summary

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, Dec 2024]
Orthologs: human mouse all
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Genomic context

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_007126.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

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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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

the regulation and expression of XPD
Title: Cloning, characterization and analysis of the 5' regulatory region of zebrafish xpd gene.
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).

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General gene information

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Markers

fb20h11.y1 (e-PCR)
- UniSTS:190295

fc39e05.x1 (e-PCR)
- UniSTS:193755

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
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

EC 3.6.4.12

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)

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