Ercc3 ERCC excision repair 3, TFIIH core complex helicase subunit [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Ercc3provided by RGD
Official Full Name: ERCC excision repair 3, TFIIH core complex helicase subunitprovided by RGD
Primary source: RGD:1307139
See related: EnsemblRapid:ENSRNOG00000013180 AllianceGenome:RGD:1307139
Gene type: protein coding
RefSeq status: PROVISIONAL
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Summary: Predicted to enable several functions, including ATP hydrolysis activity; promoter-specific chromatin binding activity; and protein C-terminus binding activity. Involved in embryonic organ development and response to hypoxia. Located in nucleus. Part of transcription factor TFIIH core complex. Biomarker of asphyxia neonatorum. Human ortholog(s) of this gene implicated in lung non-small cell carcinoma; photosensitive trichothiodystrophy 2; trichothiodystrophy; xeroderma pigmentosum; and xeroderma pigmentosum group B. Orthologous to human ERCC3 (ERCC excision repair 3, TFIIH core complex helicase subunit). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Spleen (RPKM 102.1), Thymus (RPKM 78.5) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 18p12

Exon count:: 15

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	18	NC_086036.1 (24157831..24188543)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	18	NC_051353.1 (23883613..23914326)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	18	NC_005117.4 (25037668..25068380)

Chromosome 18 - NC_086036.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
BioProject: PRJNA238328
Publication: PMID 24510058
Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

nucleotide excision repair (NER) factors XPA and XPB exist in the nuclei of neurons in the brain, suggesting that the NER may play important roles in the process of DNA repair in adult brain neurons
Title: Immunohistochemical analysis of nucleotide excision repair factors XPA and XPB in adult rat brain.

Submit: New GeneRIF Correction

General gene information

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Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables 3'-5' DNA helicase activity	IBA Inferred from Biological aspect of Ancestor more info
enables 3'-5' DNA helicase activity	ISO Inferred from Sequence Orthology more info
enables ATP binding	IEA Inferred from Electronic Annotation more info
enables ATP hydrolysis activity	ISO Inferred from Sequence Orthology more info
enables DNA binding	IEA Inferred from Electronic Annotation more info
enables DNA helicase activity	IEA Inferred from Electronic Annotation more info
enables hydrolase activity	IEA Inferred from Electronic Annotation more info
enables isomerase activity	IEA Inferred from Electronic Annotation more info
enables promoter-specific chromatin binding	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in DNA duplex unwinding	IEA Inferred from Electronic Annotation more info
involved_in DNA repair	ISO Inferred from Sequence Orthology more info
involved_in DNA topological change	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within UV protection	ISO Inferred from Sequence Orthology more info
involved_in apoptotic process	ISO Inferred from Sequence Orthology more info
involved_in embryonic organ development	IBA Inferred from Biological aspect of Ancestor more info
involved_in embryonic organ development	IEP Inferred from Expression Pattern more info	PubMed
involved_in hair cell differentiation	IBA Inferred from Biological aspect of Ancestor more info
involved_in hair cell differentiation	ISO Inferred from Sequence Orthology more info
involved_in nucleotide-excision repair	IEA Inferred from Electronic Annotation more info
involved_in nucleotide-excision repair	ISO Inferred from Sequence Orthology more info
involved_in nucleotide-excision repair, DNA duplex unwinding	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of apoptotic process	ISO Inferred from Sequence Orthology more info
involved_in protein localization	ISO Inferred from Sequence Orthology more info
involved_in regulation of mitotic cell cycle phase transition	ISO Inferred from Sequence Orthology more info
involved_in response to UV	ISO Inferred from Sequence Orthology more info
involved_in response to hypoxia	IEP Inferred from Expression Pattern more info	PubMed
involved_in response to oxidative stress	ISO Inferred from Sequence Orthology more info
involved_in transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info
involved_in transcription by RNA polymerase II	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within transcription elongation by RNA polymerase I	ISO Inferred from Sequence Orthology more info
involved_in transcription initiation at RNA polymerase II promoter	IBA Inferred from Biological aspect of Ancestor more info
involved_in transcription initiation at RNA polymerase II promoter	IEA Inferred from Electronic Annotation more info
involved_in transcription initiation at RNA polymerase II promoter	ISO Inferred from Sequence Orthology more info
involved_in transcription-coupled nucleotide-excision repair	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
located_in nucleoplasm	ISO Inferred from Sequence Orthology more info
part_of nucleotide-excision repair factor 3 complex	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleus	IEA Inferred from Electronic Annotation more info
part_of transcription factor TFIID complex	ISO Inferred from Sequence Orthology more info
part_of transcription factor TFIIH core complex	IDA Inferred from Direct Assay more info	PubMed
part_of transcription factor TFIIH core complex	ISO Inferred from Sequence Orthology more info
part_of transcription factor TFIIH holo complex	IBA Inferred from Biological aspect of Ancestor more info
part_of transcription factor TFIIH holo complex	ISO Inferred from Sequence Orthology more info
part_of transcription factor TFIIH holo complex	ISS Inferred from Sequence or Structural Similarity more info
part_of transcription preinitiation complex	IBA Inferred from Biological aspect of Ancestor more info

General protein information

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Preferred Names: general transcription and DNA repair factor IIH helicase/translocase subunit XPB

Names: DNA 3'-5' helicase/translocase XPB; DNA excision repair protein ERCC-3; TFIIH basal transcription factor complex helicase XPB subunit; TFIIH subunit XPB; excision repair cross-complementation group 3; excision repair cross-complementing rodent repair deficiency, complementation group 3; general transcription and DNA repair factor IIH helicase subunit XPB

NP_001026814.1

EC 5.6.2.4

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_001031644.1 → NP_001026814.1 general transcription and DNA repair factor IIH helicase/translocase subunit XPB

See identical proteins and their annotated locations for NP_001026814.1

Status: PROVISIONAL

Source sequence(s)

BC098856

UniProtKB/Swiss-Prot

Q4G005

UniProtKB/TrEMBL

A0A8I6A5P4, A6J2Q5

Related

ENSRNOP00000018422.5, ENSRNOT00000018422.8

Conserved Domains (4) summary

TIGR00603
Location:60 → 779

rad25; DNA repair helicase rad25

pfam04851
Location:315 → 472

ResIII; Type III restriction enzyme, res subunit

pfam13625
Location:76 → 198

Helicase_C_3; Helicase conserved C-terminal domain

pfam16203
Location:496 → 739

ERCC3_RAD25_C; ERCC3/RAD25/XPB C-terminal helicase