Rad50 RAD50 double strand break repair protein [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Rad50provided by RGD
Official Full Name: RAD50 double strand break repair proteinprovided by RGD
Primary source: RGD:621542
See related: Ensembl:ENSRNOG00000033065 AllianceGenome:RGD:621542
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: Enables double-stranded DNA binding activity. Involved in several processes, including cellular response to DNA damage stimulus; negative regulation of viral entry into host cell; and response to human chorionic gonadotropin. Located in several cellular components, including inclusion body; nuclear lumen; and perinuclear region of cytoplasm. Used to study liver cirrhosis and myocardial infarction. Human ortholog(s) of this gene implicated in transitional cell carcinoma. Orthologous to human RAD50 (RAD50 double strand break repair protein). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Thymus (RPKM 128.1), Spleen (RPKM 103.7) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 10q22

Exon count:: 25

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	10	NC_086028.1 (38310147..38362100, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	10	NC_051345.1 (37809353..37861309, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	10	NC_005109.4 (39002130..39054042, 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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Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables 3'-5' exonuclease activity	IEA Inferred from Electronic Annotation more info
contributes_to 3'-5' exonuclease activity	ISO Inferred from Sequence Orthology more info
contributes_to 3'-5' exonuclease activity	ISS Inferred from Sequence or Structural Similarity more info
enables ATP binding	IEA Inferred from Electronic Annotation more info
enables ATP hydrolysis activity	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 binding	ISO Inferred from Sequence Orthology more info
enables DNA helicase activity	IEA Inferred from Electronic Annotation more info
contributes_to DNA helicase activity	ISO Inferred from Sequence Orthology more info
enables G-quadruplex DNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables double-stranded DNA binding	IDA Inferred from Direct Assay more info	PubMed
enables double-stranded telomeric DNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables identical protein binding	IEA Inferred from Electronic Annotation more info
enables identical protein binding	ISO Inferred from Sequence Orthology more info
enables metal ion binding	IEA Inferred from Electronic Annotation more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables protein serine/threonine kinase activator activity	IEA Inferred from Electronic Annotation more info
enables protein serine/threonine kinase activator activity	ISO Inferred from Sequence Orthology more info
enables protein serine/threonine kinase activator activity	ISS Inferred from Sequence or Structural Similarity more info
enables protein-containing complex binding	IDA Inferred from Direct Assay more info	PubMed
enables protein-macromolecule adaptor activity	IEA Inferred from Electronic Annotation more info
enables protein-macromolecule adaptor activity	ISO Inferred from Sequence Orthology more info
enables protein-macromolecule adaptor activity	ISS Inferred from Sequence or Structural Similarity more info
enables single-stranded DNA endodeoxyribonuclease activity	IEA Inferred from Electronic Annotation more info
contributes_to single-stranded DNA endodeoxyribonuclease activity	ISO Inferred from Sequence Orthology more info
contributes_to single-stranded DNA endodeoxyribonuclease activity	ISS Inferred from Sequence or Structural Similarity more info
enables single-stranded telomeric DNA binding	IBA Inferred from Biological aspect of Ancestor more info

Process	Evidence Code	Pubs
involved_in DNA damage response	IEP Inferred from Expression Pattern more info	PubMed
acts_upstream_of_or_within DNA damage response	ISO Inferred from Sequence Orthology more info
involved_in DNA double-strand break processing	IEA Inferred from Electronic Annotation more info
involved_in DNA double-strand break processing	ISO Inferred from Sequence Orthology more info
involved_in DNA double-strand break processing	ISS Inferred from Sequence or Structural Similarity more info
involved_in DNA duplex unwinding	IBA Inferred from Biological aspect of Ancestor more info
involved_in DNA duplex unwinding	IEA Inferred from Electronic Annotation more info
involved_in DNA duplex unwinding	ISO Inferred from Sequence Orthology more info
involved_in DNA recombination	ISO Inferred from Sequence Orthology more info
involved_in DNA recombination	ISS Inferred from Sequence or Structural Similarity more info
involved_in DNA repair	ISO Inferred from Sequence Orthology more info
involved_in DNA repair	ISS Inferred from Sequence or Structural Similarity more info
involved_in DNA strand resection involved in replication fork processing	IEA Inferred from Electronic Annotation more info
involved_in DNA strand resection involved in replication fork processing	ISO Inferred from Sequence Orthology more info
involved_in R-loop processing	IEA Inferred from Electronic Annotation more info
involved_in R-loop processing	ISO Inferred from Sequence Orthology more info
involved_in R-loop processing	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within chromosome organization	ISO Inferred from Sequence Orthology more info
involved_in chromosome organization involved in meiotic cell cycle	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within chromosome organization involved in meiotic cell cycle	ISO Inferred from Sequence Orthology more info
involved_in double-strand break repair	IBA Inferred from Biological aspect of Ancestor more info
involved_in double-strand break repair	IEA Inferred from Electronic Annotation more info
involved_in double-strand break repair	ISO Inferred from Sequence Orthology more info
involved_in double-strand break repair	ISS Inferred from Sequence or Structural Similarity more info
involved_in double-strand break repair	TAS Traceable Author Statement more info	PubMed
involved_in double-strand break repair via homologous recombination	IEA Inferred from Electronic Annotation more info
involved_in double-strand break repair via homologous recombination	ISO Inferred from Sequence Orthology more info
involved_in heart development	IEP Inferred from Expression Pattern more info	PubMed
involved_in meiotic cell cycle	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of telomere capping	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of telomere capping	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of viral entry into host cell	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of protein autophosphorylation	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of protein autophosphorylation	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of telomere maintenance	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of telomere maintenance	ISO Inferred from Sequence Orthology more info
involved_in reciprocal meiotic recombination	TAS Traceable Author Statement more info	PubMed
acts_upstream_of_or_within regulation of mitotic cell cycle	ISO Inferred from Sequence Orthology more info
involved_in regulation of mitotic recombination	IEA Inferred from Electronic Annotation more info
involved_in regulation of mitotic recombination	ISO Inferred from Sequence Orthology more info
involved_in regulation of mitotic recombination	ISS Inferred from Sequence or Structural Similarity more info
involved_in response to human chorionic gonadotropin	IEP Inferred from Expression Pattern more info	PubMed
involved_in telomere maintenance	IEA Inferred from Electronic Annotation more info
involved_in telomere maintenance	TAS Traceable Author Statement more info	PubMed
involved_in telomere maintenance via recombination	IBA Inferred from Biological aspect of Ancestor more info
involved_in telomere maintenance via telomerase	IBA Inferred from Biological aspect of Ancestor more info
involved_in telomere maintenance via telomerase	IEA Inferred from Electronic Annotation more info
involved_in telomere maintenance via telomerase	ISO Inferred from Sequence Orthology more info
involved_in telomere maintenance via telomerase	ISS Inferred from Sequence or Structural Similarity more info
involved_in telomeric 3' overhang formation	IEA Inferred from Electronic Annotation more info
involved_in telomeric 3' overhang formation	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
part_of BRCA1-C complex	IEA Inferred from Electronic Annotation more info
part_of BRCA1-C complex	ISO Inferred from Sequence Orthology more info
part_of Mre11 complex	IBA Inferred from Biological aspect of Ancestor more info
part_of Mre11 complex	IEA Inferred from Electronic Annotation more info
NOT part_of Mre11 complex	ISO Inferred from Sequence Orthology more info
part_of Mre11 complex	ISO Inferred from Sequence Orthology more info
part_of Mre11 complex	ISS Inferred from Sequence or Structural Similarity more info
part_of Mre11 complex	TAS Traceable Author Statement more info	PubMed
part_of chromatin	IDA Inferred from Direct Assay more info	PubMed
located_in chromosome, telomeric region	IEA Inferred from Electronic Annotation more info
located_in chromosome, telomeric region	ISO Inferred from Sequence Orthology more info
is_active_in condensed nuclear chromosome	IBA Inferred from Biological aspect of Ancestor more info
located_in condensed nuclear chromosome	IDA Inferred from Direct Assay more info	PubMed
located_in inclusion body	IDA Inferred from Direct Assay more info	PubMed
located_in nucleoplasm	IDA Inferred from Direct Assay more info	PubMed
located_in nucleus	ISO Inferred from Sequence Orthology more info
located_in perinuclear region of cytoplasm	IDA Inferred from Direct Assay more info	PubMed
located_in pronucleus	ISO Inferred from Sequence Orthology more info
located_in site of double-strand break	IEA Inferred from Electronic Annotation more info
is_active_in site of double-strand break	ISO Inferred from Sequence Orthology more info
located_in site of double-strand break	ISO Inferred from Sequence Orthology more info
is_active_in site of double-strand break	ISS Inferred from Sequence or Structural Similarity more info

General protein information

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Preferred Names: DNA repair protein RAD50

Names: RAD50 homolog, double strand break repair protein

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_022246.2 → NP_071582.2 DNA repair protein RAD50

Status: PROVISIONAL

Source sequence(s)

JAXUCZ010000010

UniProtKB/Swiss-Prot

Q9JIL8

UniProtKB/TrEMBL

A6HEE0, G3V9X6

Related

ENSRNOP00000062378.1, ENSRNOT00000063772.3

Conserved Domains (1) summary

TIGR00606
Location:2 → 1312

rad50