Rad23b RAD23 homolog B, nucleotide excision repair protein [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Rad23bprovided by RGD
Official Full Name: RAD23 homolog B, nucleotide excision repair proteinprovided by RGD
Primary source: RGD:1562958
See related: Ensembl:ENSRNOG00000016137 AllianceGenome:RGD:1562958
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 RNA polymerase II cis-regulatory region sequence-specific DNA binding activity; proteasome binding activity; and ubiquitin binding activity. Involved in embryonic organ development. Predicted to be located in cytoplasm and nucleus. Predicted to be part of XPC complex. Predicted to be active in cytosol and nucleoplasm. Orthologous to human RAD23B (RAD23 homolog B, nucleotide excision repair protein). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Liver (RPKM 531.1), Muscle (RPKM 497.1) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 5q24

Exon count:: 10

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	5	NC_086023.1 (74885518..74923621)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	5	NC_051340.1 (70090232..70128340)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	5	NC_005104.4 (72103704..72141701)

Chromosome 5 - NC_086023.1 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 DNA damage sensor activity	ISO Inferred from Sequence Orthology more info
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding	ISO Inferred from Sequence Orthology more info
enables RNA polymerase II-specific DNA-binding transcription factor binding	ISO Inferred from Sequence Orthology more info
enables damaged DNA binding	IEA Inferred from Electronic Annotation more info
enables polyubiquitin modification-dependent protein binding	IBA Inferred from Biological aspect of Ancestor more info
enables polyubiquitin modification-dependent protein binding	IEA Inferred from Electronic Annotation more info
enables polyubiquitin modification-dependent protein binding	ISO Inferred from Sequence Orthology more info
enables proteasome binding	IBA Inferred from Biological aspect of Ancestor more info
enables transcription cis-regulatory region binding	ISO Inferred from Sequence Orthology more info
enables ubiquitin binding	IBA Inferred from Biological aspect of Ancestor more info
enables ubiquitin binding	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within DNA damage response	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within cellular response to interleukin-7	ISO Inferred from Sequence Orthology more info
involved_in embryonic organ development	IEP Inferred from Expression Pattern more info	PubMed
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 proteasome-mediated ubiquitin-dependent protein catabolic process	IBA Inferred from Biological aspect of Ancestor more info
involved_in proteasome-mediated ubiquitin-dependent protein catabolic process	IEA Inferred from Electronic Annotation more info
involved_in regulation of proteasomal ubiquitin-dependent protein catabolic process	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within spermatogenesis	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
part_of XPC complex	ISO Inferred from Sequence Orthology more info
part_of XPC complex	ISS Inferred from Sequence or Structural Similarity more info
located_in cytoplasm	IEA Inferred from Electronic Annotation more info
located_in cytoplasm	ISO Inferred from Sequence Orthology more info
is_active_in cytosol	IBA Inferred from Biological aspect of Ancestor more info
located_in cytosol	ISO Inferred from Sequence Orthology more info
is_active_in nucleoplasm	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleoplasm	ISO Inferred from Sequence Orthology more info
located_in nucleus	IEA Inferred from Electronic Annotation more info
located_in nucleus	ISO Inferred from Sequence Orthology more info
part_of proteasome complex	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: UV excision repair protein RAD23 homolog B

Names: RAD23b homolog

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_001025275.1 → NP_001020446.1 UV excision repair protein RAD23 homolog B

See identical proteins and their annotated locations for NP_001020446.1

Status: PROVISIONAL

Source sequence(s)

BC098674

UniProtKB/Swiss-Prot

Q0D2G8, Q4KMA2, Q5CZZ8, Q6IRD5

UniProtKB/TrEMBL

A0A8I6AUT2, A6KDQ3

Related

ENSRNOP00000021629.4, ENSRNOT00000021629.7

Conserved Domains (6) summary

cd01805
Location:1 → 78

RAD23_N; Ubiquitin-like domain of RAD23

cd14377
Location:189 → 228

UBA1_Rad23; UBA1 domain of Rad23 proteins found in metazoa

cd14428
Location:371 → 415

UBA2_HR23B; UBA2 domain of UV excision repair protein RAD23 homolog B (HR23B) found in vertebrates

TIGR00601
Location:1 → 413

rad23; UV excision repair protein Rad23

pfam09280
Location:276 → 331

XPC-binding; XPC-binding domain

pfam12238
Location:125 → 186

MSA-2c; Merozoite surface antigen 2c