Rxrb retinoid X receptor beta [Mus musculus (house mouse)] - Gene

Summary

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Official Symbol: Rxrbprovided by MGI
Official Full Name: retinoid X receptor betaprovided by MGI
Primary source: MGI:98215
See related: Ensembl:ENSMUSG00000039656; Vega:OTTMUSG00000037107
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Mus musculus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Sciurognathi; Muroidea; Muridae; Murinae; Mus; Mus
Also known as: Rub; Nr2b2; RCoR-1; AL023085; H-2RIIBP

Genomic context

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Location :: 17 B1; 17 17.98 cM

Sequence :: Chromosome: 17; NC_000083.6 (34031812..34038403)

See Rxrb in Epigenomics, MapViewer

Chromosome 17 - NC_000083.6 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence

Go to nucleotideGraphics FASTA GenBank

Go to reference sequence details

Bibliography

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GeneRIFs: Gene References Into Functions What's a GeneRIF?

During corpus callosum demyelination, retinoid X receptor beta expression is significantly increased.
Title: Expression of retinoid X receptor β is induced in astrocytes during corpus callosum demyelination.
The expression of dominant-negative RAR (dnRAR) in the forebrain down-regulated the expression of RARbeta, a target gene of RAR/RXR, indicating that dnRAR mice exhibit dysfunction of the RAR/RXR signaling pathway.
Title: Dysfunction of the RAR/RXR signaling pathway in the forebrain impairs hippocampal memory and synaptic plasticity.
Using the light-induced retinal degeneration (LIRD) mouse model, which provides a unique platform for exploring the mechanisms underlying neuritogenesis, we found that retinoid X receptors (RXRs) control neuritogenesis.
Title: Retinoid receptors trigger neuritogenesis in retinal degenerations.
Modulation of RXR-beta in beta-cells may be a new therapeutic approach for improving impaired insulin secretion in type 2 diabetes.
Title: Nuclear hormone retinoid X receptor (RXR) negatively regulates the glucose-stimulated insulin secretion of pancreatic ß-cells.
The ablation of all RXR (alpha, beta and gamma isotypes) in Sertoli cells does not recapitulate the phenotype generated upon ablation of all three retinoic acid receptors.
Title: Prepubertal testis development relies on retinoic acid but not rexinoid receptors in Sertoli cells.

Submit: New GeneRIF Correction

Alleles

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Alleles of this type are documented at Mouse Genome Informatics (MGI)

Targeted (Floxed/Frt) (1) 1 citation
Targeted (knock-out) (3) 1 citation

Interactions

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Products	Interactant	Other Gene	Source	Pubs	Description
BioGRID:203039	BioGRID:113843	NRIP1	BioGRID	PubMed	Reconstituted Complex
BioGRID:203039	BioGRID:204166	Tgif1	BioGRID	PubMed	Affinity Capture-Western
BioGRID:203039	BioGRID:113164	UBC	BioGRID	PubMed	Affinity Capture-Western

Pathways from BioSystems

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Adipocytokine signaling pathway, organism-specific biosystem (from KEGG)
Adipocytokine signaling pathway, organism-specific biosystemIncreased adipocyte volume and number are positively correlated with leptin production, and negatively correlated with production of adiponectin. Leptin is an important regulator of energy intake and...
Adipocytokine signaling pathway, conserved biosystem (from KEGG)
Adipocytokine signaling pathway, conserved biosystemIncreased adipocyte volume and number are positively correlated with leptin production, and negatively correlated with production of adiponectin. Leptin is an important regulator of energy intake and...
Gene Expression, organism-specific biosystem (from REACTOME)
Gene Expression, organism-specific biosystemcomputationally inferred pathway (not manually curated)
Generic Transcription Pathway, organism-specific biosystem (from REACTOME)
Generic Transcription Pathway, organism-specific biosystemcomputationally inferred pathway (not manually curated)
Non-small cell lung cancer, organism-specific biosystem (from KEGG)
Non-small cell lung cancer, organism-specific biosystemLung cancer is a leading cause of cancer death among men and women in industrialized countries. Non-small-cell lung cancer (NSCLC) accounts for approximately 85% of lung cancer and represents a heter...
Non-small cell lung cancer, conserved biosystem (from KEGG)
Non-small cell lung cancer, conserved biosystemLung cancer is a leading cause of cancer death among men and women in industrialized countries. Non-small-cell lung cancer (NSCLC) accounts for approximately 85% of lung cancer and represents a heter...
Nuclear Receptor transcription pathway, organism-specific biosystem (from REACTOME)
Nuclear Receptor transcription pathway, organism-specific biosystemcomputationally inferred pathway (not manually curated)
Nuclear Receptors, organism-specific biosystem (from WikiPathways)
Nuclear Receptors, organism-specific biosystemNuclear receptors are a class of proteins found within the interior of cells that are responsible for sensing the presence of steroid and thyroid hormones and certain other molecules. In response, th...
PPAR signaling pathway, organism-specific biosystem (from KEGG)
PPAR signaling pathway, organism-specific biosystemPeroxisome proliferator-activated receptors (PPARs) are nuclear hormone receptors that are activated by fatty acids and their derivatives. PPAR has three subtypes (PPARalpha, beta/delta, and gamma) s...
PPAR signaling pathway, organism-specific biosystem (from WikiPathways)
PPAR signaling pathway, organism-specific biosystemPeroxisome proliferator-activated receptors (PPARs) are nuclear hormone receptors that are activated by fatty acids and their derivatives. PPAR has three subtypes (PPARalpha, beta/delta, and gamma) s...
PPAR signaling pathway, conserved biosystem (from KEGG)
PPAR signaling pathway, conserved biosystemPeroxisome proliferator-activated receptors (PPARs) are nuclear hormone receptors that are activated by fatty acids and their derivatives. PPAR has three subtypes (PPARalpha, beta/delta, and gamma) s...
Pathways in cancer, organism-specific biosystem (from KEGG)
Pathways in cancer, organism-specific biosystem
Pathways in cancer
Retinol metabolism, organism-specific biosystem (from WikiPathways)
Retinol metabolism, organism-specific biosystemThis pathway is about carotenoid metabolism. It is mainly created by the NuGO focusteam on Carotenoid metabolism. Finally it was subject to a text mining workflow which added some additional entities
Small cell lung cancer, organism-specific biosystem (from KEGG)
Small cell lung cancer, organism-specific biosystemLung cancer is a leading cause of cancer death among men and women in industrialized countries. Small cell lung carcinoma (SCLC) is a highly aggressive neoplasm, which accounts for approximately 25% ...
Small cell lung cancer, conserved biosystem (from KEGG)
Small cell lung cancer, conserved biosystemLung cancer is a leading cause of cancer death among men and women in industrialized countries. Small cell lung carcinoma (SCLC) is a highly aggressive neoplasm, which accounts for approximately 25% ...
Thyroid cancer, organism-specific biosystem (from KEGG)
Thyroid cancer, organism-specific biosystemThyroid cancer is the most common endocrine malignancy and accounts for the majority of endocrine cancer- related deaths each year. More than 95% of thyroid carcinomas are derived from follicular cel...
Thyroid cancer, conserved biosystem (from KEGG)
Thyroid cancer, conserved biosystemThyroid cancer is the most common endocrine malignancy and accounts for the majority of endocrine cancer- related deaths each year. More than 95% of thyroid carcinomas are derived from follicular cel...
Transcriptional misregulation in cancer, organism-specific biosystem (from KEGG)
Transcriptional misregulation in cancer, organism-specific biosystem
Transcriptional misregulation in cancer
Transcriptional misregulation in cancer, conserved biosystem (from KEGG)
Transcriptional misregulation in cancer, conserved biosystem
Transcriptional misregulation in cancer

General gene information

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Markers

MARC_5897-5898:997299407:1 (e-PCR)
- UniSTS:269602

UniSTS:237626 (e-PCR)
- UniSTS:237626

MARC_6301-6302:997299518:1 (e-PCR)
- UniSTS:269632

Rxrb (e-PCR), detects polymorphism
- UniSTS:463429

Rxrb (e-PCR), detects polymorphism
- UniSTS:526981

Rxrb (e-PCR), detects polymorphism
- UniSTS:527531

Rxrb (e-PCR), detects polymorphism
- UniSTS:186541

RH125417 (e-PCR)
- UniSTS:162239

Homology

Homologs of the Rxrb gene: The Rxrb gene is conserved in human, chimpanzee, Rhesus monkey, dog, cow, rat, zebrafish, fruit fly, and mosquito.
Map Viewer (Human, Rat)
OrthoDB: The Hierarchical Catalog of Eukaryotic Orthologs

Gene Ontology Provided by MGI

Function	Evidence Code	Pubs
9-cis retinoic acid receptor activity	IDA Inferred from Direct Assay more info	PubMed
9-cis retinoic acid receptor activity	ISO Inferred from Sequence Orthology more info
DNA binding	IEA Inferred from Electronic Annotation more info
ligand-activated sequence-specific DNA binding RNA polymerase II transcription factor activity	ISO Inferred from Sequence Orthology more info
metal ion binding	IEA Inferred from Electronic Annotation more info
protein binding	IPI Inferred from Physical Interaction more info	PubMed
protein heterodimerization activity	ISO Inferred from Sequence Orthology more info
retinoic acid receptor binding	ISO Inferred from Sequence Orthology more info
sequence-specific DNA binding	IGI Inferred from Genetic Interaction more info	PubMed
sequence-specific DNA binding transcription factor activity	IEA Inferred from Electronic Annotation more info
steroid hormone receptor activity	IEA Inferred from Electronic Annotation more info
thyroid hormone receptor binding	ISO Inferred from Sequence Orthology more info
thyroid hormone receptor coactivator activity	ISO Inferred from Sequence Orthology more info
transcription regulatory region DNA binding	IDA Inferred from Direct Assay more info	PubMed
vitamin D receptor binding	ISO Inferred from Sequence Orthology more info
zinc ion binding	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
cardiac muscle cell proliferation	IGI Inferred from Genetic Interaction more info	PubMed
cellular response to retinoic acid	IDA Inferred from Direct Assay more info	PubMed
in utero embryonic development	IGI Inferred from Genetic Interaction more info	PubMed
maternal placenta development	IGI Inferred from Genetic Interaction more info	PubMed
positive regulation of transcription from RNA polymerase II promoter	IGI Inferred from Genetic Interaction more info	PubMed
regulation of myelination	ISO Inferred from Sequence Orthology more info
regulation of transcription, DNA-dependent	IEA Inferred from Electronic Annotation more info
retinoic acid receptor signaling pathway	IDA Inferred from Direct Assay more info	PubMed
steroid hormone mediated signaling pathway	IEA Inferred from Electronic Annotation more info
transcription, DNA-dependent	IEA Inferred from Electronic Annotation more info
ventricular cardiac muscle cell differentiation	IGI Inferred from Genetic Interaction more info	PubMed
ventricular cardiac muscle cell differentiation	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
nucleus	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: retinoic acid receptor RXR-beta

Names: retinoic acid receptor RXR-beta; nuclear receptor subfamily 2 group B member 2; MHC class I regulatory element-binding protein H-2RIIBP

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_001205214.1 → NP_001192143.1 retinoic acid receptor RXR-beta isoform 1

Status: VALIDATED

Description

Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (1).

Source sequence(s)

CR974462

Consensus CDS

CCDS57066.1

UniProtKB/TrEMBL

Q3TWJ1

Related

ENSMUSP00000036585, OTTMUSP00000053307, ENSMUST00000044858, OTTMUST00000095534

Conserved Domains (2) summary

cd06943
Location:285 – 502
Blast Score: 1030

NR_LBD_RXR_like; The ligand binding domain of the retinoid X receptor and Ultraspiracle, members of nuclear receptor superfamily.

cd06956
Location:191 – 266
Blast Score: 318

NR_DBD_RXR; DNA-binding domain of retinoid X receptor (RXR) is composed of two C4-type zinc fingers
NM_001205215.1 → NP_001192144.1 retinoic acid receptor RXR-beta isoform 3

Status: VALIDATED

Description

Transcript Variant: This variant (3) differs in the 5' UTR, lacks a portion of the 5' coding region, and initiates translation at a downstream start codon, compared to variant 1. The encoded isoform (3) has a shorter N-terminus, compared to isoform 1.

Source sequence(s)

CR974462

Consensus CDS

CCDS57067.1

UniProtKB/TrEMBL

Q8VCR0

Conserved Domains (2) summary

cd06943
Location:175 – 392
Blast Score: 1030

NR_LBD_RXR_like; The ligand binding domain of the retinoid X receptor and Ultraspiracle, members of nuclear receptor superfamily.

cd06956
Location:81 – 156
Blast Score: 323

NR_DBD_RXR; DNA-binding domain of retinoid X receptor (RXR) is composed of two C4-type zinc fingers
NM_001205216.1 → NP_001192145.1 retinoic acid receptor RXR-beta isoform 4

Status: VALIDATED

Description

Transcript Variant: This variant (4) has multiple differences, compared to variant 1. These differences result in a distinct 5' UTR and cause translation initiation at a downstream start codon, compared to variant 1. The encoded protein (isoform 4) is shorter than isoform 1.

Source sequence(s)

CR974462

Consensus CDS

CCDS57068.1

UniProtKB/Swiss-Prot

P28704

Related

ENSMUSP00000112311, OTTMUSP00000053309, ENSMUST00000116612, OTTMUST00000095536

Conserved Domains (2) summary

cd06943
Location:175 – 388
Blast Score: 1046

NR_LBD_RXR_like; The ligand binding domain of the retinoid X receptor and Ultraspiracle, members of nuclear receptor superfamily.

cd06956
Location:81 – 156
Blast Score: 323

NR_DBD_RXR; DNA-binding domain of retinoid X receptor (RXR) is composed of two C4-type zinc fingers
NM_011306.4 → NP_035436.1 retinoic acid receptor RXR-beta isoform 2

Status: VALIDATED

Description

Transcript Variant: This variant (2) uses an alternate in-frame splice site in the 3' coding region, compared to variant 1. This results in a shorter protein (isoform 2), compared to isoform 1.

Source sequence(s)

CR974462

UniProtKB/Swiss-Prot

P28704

Conserved Domains (2) summary

cd06943
Location:285 – 498
Blast Score: 1046

NR_LBD_RXR_like; The ligand binding domain of the retinoid X receptor and Ultraspiracle, members of nuclear receptor superfamily.

cd06956
Location:191 – 266
Blast Score: 318

NR_DBD_RXR; DNA-binding domain of retinoid X receptor (RXR) is composed of two C4-type zinc fingers

RefSeqs of Annotated Genomes: Mus musculus Annotation Release 103

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

Reference GRCm38.p1 129X1/SvJ

Genomic

NT_039662.3 Reference GRCm38.p1 129X1/SvJ

Range

280750..287341

Download

GenBank, FASTA, Sequence Viewer (Graphics)

Reference GRCm38.p1 C57BL/6J

Genomic

NC_000083.6 Reference GRCm38.p1 C57BL/6J

Range

34031812..34038403

Download

GenBank, FASTA, Sequence Viewer (Graphics)

Reference GRCm38.p1 NOD/MrkTac

Genomic

NT_187027.1 Reference GRCm38.p1 NOD/MrkTac

Range

342257..349010

Download

GenBank, FASTA, Sequence Viewer (Graphics)

Reference GRCm38.p1 NOD/ShiLtJ

Genomic

NT_187004.1 Reference GRCm38.p1 NOD/ShiLtJ

Range

342369..349122

Download

GenBank, FASTA, Sequence Viewer (Graphics)

Alternate Mm_Celera

Genomic

AC_000039.1 Alternate Mm_Celera

Range

36777942..36784536

Download

GenBank, FASTA, Sequence Viewer (Graphics)

Nucleotide		Protein	Strain
Heading	Accession and Version	Protein	Strain
genomic	AAHY01132182.1 (16912..23506)	None
genomic	AF100956.1	AAC69904.1	129/SvJ
genomic	CH466660.1	EDL10246.1	mixed
		EDL10247.1	mixed
		EDL10248.1	mixed
genomic	CR974462.5 (124984..131575)	None
genomic	CU406960.9 (128050..134803)	None
genomic	CU463333.16 (94243..100996)	None
genomic	D21831.2	BAA04858.1	BALB/c
		BAA04859.1	BALB/c
genomic	X70190.1	None
genomic	X72017.1	CAA50896.1	BALB/c
mRNA	AK013718.1	None	C57BL/6J
mRNA	AK140371.1	BAE24359.1	C57BL/6J
mRNA	AK159671.1	BAE35275.1	C57BL/6J
mRNA	BC019432.1	AAH19432.1	FVB/N
mRNA	BC049773.1	AAH49773.1
mRNA	M26804.1	AAA37772.1
mRNA	M84818.1	AAA40081.2
mRNA	X66224.1	CAA46963.1