Ercc3 excision repair cross-complementing rodent repair deficiency, complementation group 3 [Rattus norvegicus (Norway rat)] - Gene

Summary

Go to the top of the page Help

Official Symbol: Ercc3provided by RGD
Official Full Name: excision repair cross-complementing rodent repair deficiency, complementation group 3provided by RGD
Primary source: RGD:1307139
See related: Ensembl:ENSRNOG00000013180
Gene type: protein coding
RefSeq status: PROVISIONAL
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Sciurognathi; Muroidea; Muridae; Murinae; Rattus

Genomic context

Go to the top of the page Help

Location :: 18p12

Sequence :: Chromosome: 18; NC_005117.3 (24752960..24783861)

See Ercc3 in MapViewer

Chromosome 18 - NC_005117.3 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

Go to the top of the page Help

Genomic Sequence

Go to nucleotideGraphics FASTA GenBank

Go to reference sequence details

Bibliography

Go to the top of the page Help

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

Pathways from BioSystems

Go to the top of the page Help

Basal transcription factors, organism-specific biosystem (from KEGG)
Basal transcription factors, organism-specific biosystem
Basal transcription factors
Basal transcription factors, conserved biosystem (from KEGG)
Basal transcription factors, conserved biosystem
Basal transcription factors
DNA Repair, organism-specific biosystem (from REACTOME)
DNA Repair, organism-specific biosystemcomputationally inferred pathway (not manually curated)
Dual incision reaction in GG-NER, organism-specific biosystem (from REACTOME)
Dual incision reaction in GG-NER, organism-specific biosystemcomputationally inferred pathway (not manually curated)
Dual incision reaction in TC-NER, organism-specific biosystem (from REACTOME)
Dual incision reaction in TC-NER, organism-specific biosystemcomputationally inferred pathway (not manually curated)
Estrogen signalling, organism-specific biosystem (from WikiPathways)
Estrogen signalling, organism-specific biosystemEstrogen receptor refers to a group of receptors which are activated by the hormone 17&amp;#x3b2;-estradiol (estrogen). Two types of estrogen receptor exist: ER which is a member of the nuclear h...
Eukaryotic Transcription Initiation, organism-specific biosystem (from WikiPathways)
Eukaryotic Transcription Initiation, organism-specific biosystemIn eukaryotes, RNA polymerase, and therefore the initiation of transcription, requires the presence of a core promoter sequence in the DNA. RNA polymerase is able to bind to core promoters in the pre...
Formation of incision complex in GG-NER, organism-specific biosystem (from REACTOME)
Formation of incision complex in GG-NER, organism-specific biosystemcomputationally inferred pathway (not manually curated)
Formation of the Early Elongation Complex, organism-specific biosystem (from REACTOME)
Formation of the Early Elongation Complex, organism-specific biosystemcomputationally inferred pathway (not manually curated)
Gene Expression, organism-specific biosystem (from REACTOME)
Gene Expression, organism-specific biosystemcomputationally inferred pathway (not manually curated)
Global Genomic NER (GG-NER), organism-specific biosystem (from REACTOME)
Global Genomic NER (GG-NER), organism-specific biosystemcomputationally inferred pathway (not manually curated)
Holo-TFIIH complex, organism-specific biosystem (from KEGG)
Holo-TFIIH complex, organism-specific biosystemStructural complex; Genetic information processing; Repair system
Nucleotide Excision Repair, organism-specific biosystem (from REACTOME)
Nucleotide Excision Repair, organism-specific biosystemcomputationally inferred pathway (not manually curated)
Nucleotide excision repair, organism-specific biosystem (from KEGG)
Nucleotide excision repair, organism-specific biosystemNucleotide excision repair (NER) is a mechanism to recognize and repair bulky DNA damage caused by compounds, environmental carcinogens, and exposure to UV-light. In humans hereditary defects in the ...
Nucleotide excision repair, conserved biosystem (from KEGG)
Nucleotide excision repair, conserved biosystemNucleotide excision repair (NER) is a mechanism to recognize and repair bulky DNA damage caused by compounds, environmental carcinogens, and exposure to UV-light. In humans hereditary defects in the ...
RNA Pol II CTD phosphorylation and interaction with CE, organism-specific biosystem (from REACTOME)
RNA Pol II CTD phosphorylation and interaction with CE, organism-specific biosystemcomputationally inferred pathway (not manually curated)
RNA Polymerase I Chain Elongation, organism-specific biosystem (from REACTOME)
RNA Polymerase I Chain Elongation, organism-specific biosystemcomputationally inferred pathway (not manually curated)
RNA Polymerase I Promoter Clearance, organism-specific biosystem (from REACTOME)
RNA Polymerase I Promoter Clearance, organism-specific biosystemcomputationally inferred pathway (not manually curated)
RNA Polymerase I Promoter Escape, organism-specific biosystem (from REACTOME)
RNA Polymerase I Promoter Escape, organism-specific biosystemcomputationally inferred pathway (not manually curated)
RNA Polymerase I Transcription, organism-specific biosystem (from REACTOME)
RNA Polymerase I Transcription, organism-specific biosystemcomputationally inferred pathway (not manually curated)
RNA Polymerase I Transcription Initiation, organism-specific biosystem (from REACTOME)
RNA Polymerase I Transcription Initiation, organism-specific biosystemcomputationally inferred pathway (not manually curated)
RNA Polymerase I Transcription Termination, organism-specific biosystem (from REACTOME)
RNA Polymerase I Transcription Termination, organism-specific biosystemcomputationally inferred pathway (not manually curated)
RNA Polymerase I, RNA Polymerase III, and Mitochondrial Transcription, organism-specific biosystem (from REACTOME)
RNA Polymerase I, RNA Polymerase III, and Mitochondrial Transcription, organism-specific biosystemcomputationally inferred pathway (not manually curated)
RNA Polymerase II Pre-transcription Events, organism-specific biosystem (from REACTOME)
RNA Polymerase II Pre-transcription Events, organism-specific biosystemcomputationally inferred pathway (not manually curated)
RNA Polymerase II Promoter Escape, organism-specific biosystem (from REACTOME)
RNA Polymerase II Promoter Escape, organism-specific biosystemcomputationally inferred pathway (not manually curated)
RNA Polymerase II Transcription, organism-specific biosystem (from REACTOME)
RNA Polymerase II Transcription, organism-specific biosystemcomputationally inferred pathway (not manually curated)
RNA Polymerase II Transcription Elongation, organism-specific biosystem (from REACTOME)
RNA Polymerase II Transcription Elongation, organism-specific biosystemcomputationally inferred pathway (not manually curated)
RNA Polymerase II Transcription Initiation, organism-specific biosystem (from REACTOME)
RNA Polymerase II Transcription Initiation, organism-specific biosystemcomputationally inferred pathway (not manually curated)
RNA Polymerase II Transcription Initiation And Promoter Clearance, organism-specific biosystem (from REACTOME)
RNA Polymerase II Transcription Initiation And Promoter Clearance, organism-specific biosystemcomputationally inferred pathway (not manually curated)
RNA Polymerase II Transcription Pre-Initiation And Promoter Opening, organism-specific biosystem (from REACTOME)
RNA Polymerase II Transcription Pre-Initiation And Promoter Opening, organism-specific biosystemcomputationally inferred pathway (not manually curated)
Transcription-coupled NER (TC-NER), organism-specific biosystem (from REACTOME)
Transcription-coupled NER (TC-NER), organism-specific biosystemcomputationally inferred pathway (not manually curated)
mRNA Capping, organism-specific biosystem (from REACTOME)
mRNA Capping, organism-specific biosystemcomputationally inferred pathway (not manually curated)

General gene information

Go to the top of the page Help

Homology

Homologs of the Ercc3 gene: The Ercc3 gene is conserved in human, chimpanzee, Rhesus monkey, dog, cow, mouse, chicken, zebrafish, fruit fly, mosquito, C.elegans, S.cerevisiae, K.lactis, E.gossypii, S.pombe, M.oryzae, N.crassa, A.thaliana, and rice.
Map Viewer (Human, Mouse)
OrthoDB: The Hierarchical Catalog of Eukaryotic Orthologs

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
3'-5' DNA helicase activity	IEA Inferred from Electronic Annotation more info
3'-5' DNA helicase activity	ISO Inferred from Sequence Orthology more info
ATP binding	IDA Inferred from Direct Assay more info	PubMed
ATP-dependent DNA helicase activity	IDA Inferred from Direct Assay more info	PubMed
ATPase activity	IDA Inferred from Direct Assay more info	PubMed
ATPase activity	ISO Inferred from Sequence Orthology more info
DNA binding	IEA Inferred from Electronic Annotation more info
contributes_to DNA-dependent ATPase activity	ISO Inferred from Sequence Orthology more info
DNA-dependent ATPase activity	ISS Inferred from Sequence or Structural Similarity more info
GTP binding	IDA Inferred from Direct Assay more info	PubMed
RNA polymerase II carboxy-terminal domain kinase activity	IDA Inferred from Direct Assay more info	PubMed
contributes_to RNA polymerase II carboxy-terminal domain kinase activity	ISO Inferred from Sequence Orthology more info
RNA polymerase II carboxy-terminal domain kinase activity	ISS Inferred from Sequence or Structural Similarity more info
dATP binding	IDA Inferred from Direct Assay more info	PubMed
peptide binding	IDA Inferred from Direct Assay more info	PubMed
protein C-terminus binding	IEA Inferred from Electronic Annotation more info
protein C-terminus binding	ISO Inferred from Sequence Orthology more info
protein N-terminus binding	IEA Inferred from Electronic Annotation more info
protein N-terminus binding	ISO Inferred from Sequence Orthology more info
contributes_to protein kinase activity	ISO Inferred from Sequence Orthology more info
protein kinase activity	ISS Inferred from Sequence or Structural Similarity more info
transcription factor binding	IEA Inferred from Electronic Annotation more info
transcription factor binding	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
ATP catabolic process	IDA Inferred from Direct Assay more info	PubMed
DNA repair	ISO Inferred from Sequence Orthology more info
DNA topological change	IEA Inferred from Electronic Annotation more info
DNA topological change	ISO Inferred from Sequence Orthology more info
UV protection	IEA Inferred from Electronic Annotation more info
UV protection	ISO Inferred from Sequence Orthology more info
cell cycle checkpoint	IEA Inferred from Electronic Annotation more info
cell cycle checkpoint	ISO Inferred from Sequence Orthology more info
hair cell differentiation	IEA Inferred from Electronic Annotation more info
hair cell differentiation	ISO Inferred from Sequence Orthology more info
induction of apoptosis	IEA Inferred from Electronic Annotation more info
induction of apoptosis	ISO Inferred from Sequence Orthology more info
nucleotide-excision repair	ISO Inferred from Sequence Orthology more info
nucleotide-excision repair, DNA duplex unwinding	IEA Inferred from Electronic Annotation more info
nucleotide-excision repair, DNA duplex unwinding	ISO Inferred from Sequence Orthology more info
nucleotide-excision repair, DNA incision	IEA Inferred from Electronic Annotation more info
nucleotide-excision repair, DNA incision	ISO Inferred from Sequence Orthology more info
positive regulation of transcription from RNA polymerase II promoter	IEA Inferred from Electronic Annotation more info
positive regulation of transcription from RNA polymerase II promoter	ISO Inferred from Sequence Orthology more info
protein localization	IEA Inferred from Electronic Annotation more info
protein localization	ISO Inferred from Sequence Orthology more info
protein phosphorylation	IDA Inferred from Direct Assay more info	PubMed
response to UV	ISO Inferred from Sequence Orthology more info
response to hypoxia	IEP Inferred from Expression Pattern more info	PubMed
response to oxidative stress	IEA Inferred from Electronic Annotation more info
response to oxidative stress	ISO Inferred from Sequence Orthology more info
transcription from RNA polymerase II promoter	ISO Inferred from Sequence Orthology more info
transcription from RNA polymerase II promoter	ISS Inferred from Sequence or Structural Similarity more info
transcription-coupled nucleotide-excision repair	IEA Inferred from Electronic Annotation more info
transcription-coupled nucleotide-excision repair	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
SSL2-core TFIIH complex	IDA Inferred from Direct Assay more info	PubMed
holo TFIIH complex	ISO Inferred from Sequence Orthology more info
holo TFIIH complex	ISS Inferred from Sequence or Structural Similarity more info

General protein information

Go to the top of the page Help

Preferred Names: TFIIH basal transcription factor complex helicase XPB subunit

Names: TFIIH basal transcription factor complex helicase XPB subunit; DNA excision repair protein ERCC-3

NP_001026814.1

EC 3.6.4.12

NCBI Reference Sequences (RefSeq)

Go to the top of the page Help

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 TFIIH basal transcription factor complex helicase XPB subunit

Status: PROVISIONAL

Source sequence(s)

BC098856

UniProtKB/Swiss-Prot

Q4G005

Related

ENSRNOP00000018422, ENSRNOT00000018422

Conserved Domains (4) summary

cd00046
Location:334 – 470
Blast Score: 111

DEXDc; DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.

cd00079
Location:533 – 648
Blast Score: 142

HELICc; Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may ...

TIGR00603
Location:60 – 779
Blast Score: 3566

rad25; DNA repair helicase rad25

pfam13625
Location:75 – 200
Blast Score: 291

Helicase_C_3; Helicase conserved C-terminal domain

RefSeqs of Annotated Genomes: Build 5.1

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference Rnor_5.0 Primary Assembly

Genomic

NC_005117.3 Reference Rnor_5.0 Primary Assembly

Range

24752960..24783861

Download

GenBank, FASTA, Sequence Viewer (Graphics)

Alternate Rn_Celera

Genomic

AC_000086.1 Alternate Rn_Celera

Range

23636100..23666812

Download

GenBank, FASTA, Sequence Viewer (Graphics)

Nucleotide		Protein
Heading	Accession and Version	Protein
genomic	AABR06094504.1 (47711..78612)	None
genomic	AAHX01094388.1 (13181..43893)	None
genomic	CH473974.1	EDL76187.1
mRNA	BC098856.1	AAH98856.1