Ercc4 ERCC excision repair 4, endonuclease catalytic subunit [Rattus norvegicus (Norway rat)] - Gene

Summary

Symbol: Ercc4provided by RGD
Full Name: ERCC excision repair 4, endonuclease catalytic subunitprovided by RGD
Primary source: RGD:1560340
See related: Ensembl:ENSRNOG00000070542 AllianceGenome:RGD:1560340
Gene type: protein coding
RefSeq status: MODEL
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as: RGD1560340
Summary: Predicted to enable several functions, including DNA binding activity; TFIID-class transcription factor complex binding activity; and promoter-specific chromatin binding activity. Predicted to contribute to 3' overhang single-stranded DNA endodeoxyribonuclease activity and DNA binding activity. Involved in cellular response to organic cyclic compound. Predicted to be located in chromosome, telomeric region and nucleus. Predicted to be part of ERCC4-ERCC1 complex and nucleotide-excision repair factor 1 complex. Human ortholog(s) of this gene implicated in Fanconi anemia complementation group Q; XFE progeroid syndrome; pancreatic cancer; xeroderma pigmentosum; and xeroderma pigmentosum group F. Orthologous to human ERCC4 (ERCC excision repair 4, endonuclease catalytic subunit). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Kidney (RPKM 88.6), Brain (RPKM 76.5) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 10q11

Exon count:: 12

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	10	NC_086028.1 (2926085..2958176, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	10	NC_051345.1 (2416259..2448364, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	10	NC_005109.4 (2010140..2037953, complement)

Chromosome 10 - NC_086028.1 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?

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General gene information

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Homology

NCBI Orthologs

Orthologs from OrthoDB

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
contributes_to 3' overhang single-stranded DNA endodeoxyribonuclease activity	ISO Inferred from Sequence Orthology more info
contributes_to DNA binding	ISO Inferred from Sequence Orthology more info
contributes_to DNA endonuclease activity	ISO Inferred from Sequence Orthology more info
enables DNA endonuclease activity	ISO Inferred from Sequence Orthology more info
enables TFIID-class transcription factor complex binding	ISO Inferred from Sequence Orthology more info
enables damaged DNA binding	ISO Inferred from Sequence Orthology more info
enables identical protein binding	ISO Inferred from Sequence Orthology more info
enables promoter-specific chromatin binding	ISO Inferred from Sequence Orthology more info
enables single-stranded DNA binding	ISO Inferred from Sequence Orthology more info
NOT enables telomerase inhibitor activity	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within DNA repair	ISO Inferred from Sequence Orthology more info
involved_in DNA repair	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within UV protection	ISO Inferred from Sequence Orthology more info
involved_in cellular response to UV	ISO Inferred from Sequence Orthology more info
involved_in cellular response to organic cyclic compound	IEP Inferred from Expression Pattern more info	PubMed
involved_in double-strand break repair via homologous recombination	ISO Inferred from Sequence Orthology more info
involved_in double-strand break repair via nonhomologous end joining	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of protection from non-homologous end joining at telomere	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of telomere maintenance	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of telomere maintenance via telomere lengthening	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within nucleotide-excision repair	ISO Inferred from Sequence Orthology more info
involved_in nucleotide-excision repair	ISO Inferred from Sequence Orthology more info
involved_in nucleotide-excision repair involved in interstrand cross-link repair	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within regulation of autophagy	ISO Inferred from Sequence Orthology more info
involved_in response to UV	ISO Inferred from Sequence Orthology more info
involved_in telomere maintenance	ISO Inferred from Sequence Orthology more info
involved_in telomeric DNA-containing double minutes formation	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
part_of ERCC4-ERCC1 complex	ISO Inferred from Sequence Orthology more info
located_in chromosome, telomeric region	ISO Inferred from Sequence Orthology more info
part_of nucleotide-excision repair complex	ISO Inferred from Sequence Orthology more info
part_of nucleotide-excision repair factor 1 complex	ISO Inferred from Sequence Orthology more info
located_in nucleus	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: DNA repair endonuclease XPF; excision repair cross-complementing rodent repair deficiency, complementation group 4

Names: Ercc4 protein-like; excision repair cross-complementation group 4

NCBI Reference Sequences (RefSeq)

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RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

Reference GRCr8

Genomic

NC_086028.1 Reference GRCr8

Range

2926085..2958176 complement

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_039087015.2 → XP_038942943.1 DNA repair endonuclease XPF isoform X2

UniProtKB/TrEMBL

A0A0G2K855, A0A8I5ZWK5

Related

ENSRNOP00000083739.1

Conserved Domains (2) summary

TIGR00596
Location:97 → 877

rad1; DNA repair protein (rad1)

cl28899
Location:21 → 165

DEAD-like_helicase_N; N-terminal helicase domain of the DEAD-box helicase superfamily
XM_039087014.2 → XP_038942942.1 DNA repair endonuclease XPF isoform X1

UniProtKB/TrEMBL

A0A0G2K855, D3ZT95

Related

ENSRNOP00000004563.7

Conserved Domains (2) summary

TIGR00596
Location:97 → 908

rad1; DNA repair protein (rad1)

cl28899
Location:21 → 165

DEAD-like_helicase_N; N-terminal helicase domain of the DEAD-box helicase superfamily
XM_039087016.2 → XP_038942944.1 DNA repair endonuclease XPF isoform X3

UniProtKB/TrEMBL

A0A0G2K855

Conserved Domains (2) summary

TIGR00596
Location:97 → 871

rad1; DNA repair protein (rad1)

cl28899
Location:21 → 165

DEAD-like_helicase_N; N-terminal helicase domain of the DEAD-box helicase superfamily
XM_039087017.2 → XP_038942945.1 DNA repair endonuclease XPF isoform X4

UniProtKB/TrEMBL

A0A0G2K855

Conserved Domains (1) summary

TIGR00596
Location:1 → 727

rad1; DNA repair protein (rad1)
XM_039087018.2 → XP_038942946.1 DNA repair endonuclease XPF isoform X5

Conserved Domains (1) summary

TIGR00596
Location:2 → 645

rad1; DNA repair protein (rad1)