Rorb RAR-related orphan receptor beta [Mus musculus (house mouse)] - Gene

Summary

Official Symbol: Rorbprovided by MGI
Official Full Name: RAR-related orphan receptor betaprovided by MGI
Primary source: MGI:MGI:1343464
See related: Ensembl:ENSMUSG00000036192 AllianceGenome:MGI:1343464
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Mus musculus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as: RZRB; hstp; Nr1f2; Rorbeta; RZR-beta
Summary: The protein encoded by this gene is a member of the NR1 subfamily of nuclear hormone receptors. It is a DNA-binding protein that can bind as a monomer or as a homodimer to hormone response elements upstream of several genes to enhance the expression of those genes. The encoded protein has been shown to interact with NM23-2, a nucleoside diphosphate kinase involved in organogenesis and differentiation, and to help regulate the expression of some genes involved in circadian rhythm. Three transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Feb 2014]
Expression: Biased expression in cortex adult (RPKM 5.3), frontal lobe adult (RPKM 2.8) and 5 other tissues See more
Orthologs: human all
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Genomic context

Location:: 19 B; 19 13.28 cM

Exon count:: 12

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCm39 (GCF_000001635.27)	19	NC_000085.7 (18907966..19088560, complement)
108.20200622	previous assembly	GRCm38.p6 (GCF_000001635.26)	19	NC_000085.6 (18930609..19111196, complement)

Chromosome 19 - NC_000085.7 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: Mouse ENCODE transcriptome data
Description: RNA profiling data sets generated by the Mouse ENCODE project.
BioProject: PRJNA66167
Publication: PMID 25409824
Analysis date: n/a

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

An allelic series of spontaneous Rorb mutant mice exhibit a gait phenotype, changes in retina morphology and behavior, and gene expression signatures associated with the unfolded protein response.
Title: An allelic series of spontaneous Rorb mutant mice exhibit a gait phenotype, changes in retina morphology and behavior, and gene expression signatures associated with the unfolded protein response.
Cortical RORbeta is required for layer 4 transcriptional identity and barrel integrity.
Title: Cortical RORβ is required for layer 4 transcriptional identity and barrel integrity.
Rorbeta is a key developmental mediator of colliculo-thalamic innervation. Such regulation could represent a general mechanism orchestrating long-range neuronal connections in the mammalian brain.
Title: Rorβ regulates selective axon-target innervation in the mammalian midbrain.
findings demonstrate that miR-219a-5p is involved in the regulation of Rorbeta in both mouse and human bone.
Title: miR-219a-5p Regulates Rorβ During Osteoblast Differentiation and in Age-related Bone Loss.
These data demonstrate that loss of Rorbeta has beneficial skeletal effects by increasing bone formation and decreasing bone resorption, at least in part through beta-catenin-dependent activation of the Wnt pathway. Thus, inhibition of Rorbeta represents a novel approach to potentially prevent or reverse osteoporosis.
Title: Osteoprotection Through the Deletion of the Transcription Factor Rorβ in Mice.
The inhibitory Pax2+ RORbeta interneuron have a dedicated and specific role in modulating sensory input to the spinal motor system during locomotion and that this inhibition is necessary for fluid stepping movements.
Title: RORβ Spinal Interneurons Gate Sensory Transmission during Locomotion to Secure a Fluid Walking Gait.
results suggest that a mutually repressive mechanism exists between Brn1/2 and Rorb expression and that the established expression of Brn1/2 and Rorb further specifies those neurons into L2/3 and L4, respectively, during UCP maturation
Title: Mutually repressive interaction between Brn1/2 and Rorb contributes to the establishment of neocortical layer 2/3 and layer 4.
Data indicate that positive feedback between neural retina leucine zipper factor (NRL) and retinoid-related orphan receptor beta gene (Rorb) genes reinforces the commitment to a rod differentiation fate.
Title: Feedback induction of a photoreceptor-specific isoform of retinoid-related orphan nuclear receptor β by the rod transcription factor NRL.
these data demonstrate that Rorbeta regulates known osteogenic pathways, and may represent a novel therapeutic target for age-associated bone loss.
Title: Identification of Rorβ targets in cultured osteoblasts and in human bone.
A distinct retinoid-related orphan nuclear receptor beta1 (RORbeta1) isoform encoded by the retinoid-related orphan nuclear receptor beta gene (Rorb) is critical for both amacrine and horizontal cell differentiation in mice.
Title: An isoform of retinoid-related orphan receptor β directs differentiation of retinal amacrine and horizontal interneurons.

Submit: New GeneRIF Correction See all GeneRIFs (15)

Variation

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Alleles

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

Endonuclease-mediated (4)
Spontaneous (5) 1 citation
Chemically induced (ENU) (3)
Targeted (13) 1 citation

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

Rorb (e-PCR), detects polymorphism
- UniSTS:158755

BB387589 (e-PCR)
- UniSTS:209447

Rorb (e-PCR), detects polymorphism
- UniSTS:507196

RH131851 (e-PCR)
- UniSTS:215134

Gene Ontology Provided by MGI

Function	Evidence Code	Pubs
enables DNA binding	IEA Inferred from Electronic Annotation more info
enables DNA-binding transcription activator activity, RNA polymerase II-specific	IDA Inferred from Direct Assay more info	PubMed
enables DNA-binding transcription factor activity	IDA Inferred from Direct Assay more info	PubMed
enables DNA-binding transcription factor activity	ISO Inferred from Sequence Orthology more info
enables DNA-binding transcription factor activity, RNA polymerase II-specific	IDA Inferred from Direct Assay more info	PubMed
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding	IDA Inferred from Direct Assay more info	PubMed
enables melatonin receptor activity	IBA Inferred from Biological aspect of Ancestor more info
enables melatonin receptor activity	ISO Inferred from Sequence Orthology more info
enables metal ion binding	IEA Inferred from Electronic Annotation more info
enables nuclear receptor activity	IBA Inferred from Biological aspect of Ancestor more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables sequence-specific DNA binding	IDA Inferred from Direct Assay more info	PubMed
enables sequence-specific double-stranded DNA binding	ISO Inferred from Sequence Orthology more info
enables zinc ion binding	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
involved_in amacrine cell differentiation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in cellular response to retinoic acid	ISO Inferred from Sequence Orthology more info
involved_in eye photoreceptor cell development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within multicellular organism development	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of DNA-templated transcription	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of osteoblast differentiation	IDA Inferred from Direct Assay more info	PubMed
involved_in positive regulation of DNA-templated transcription	IDA Inferred from Direct Assay more info	PubMed
involved_in positive regulation of DNA-templated transcription	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of transcription by RNA polymerase II	IDA Inferred from Direct Assay more info	PubMed
involved_in regulation of DNA-templated transcription	IEA Inferred from Electronic Annotation more info
involved_in regulation of circadian rhythm	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in regulation of transcription by RNA polymerase II	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within response to stimulus	IEA Inferred from Electronic Annotation more info
involved_in retina development in camera-type eye	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in retinal cone cell development	IDA Inferred from Direct Assay more info	PubMed
involved_in retinal rod cell development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within retinal rod cell differentiation	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within rhythmic process	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within visual perception	IEA Inferred from Electronic Annotation more info

Component	Evidence Code	Pubs
located_in nucleoplasm	ISO Inferred from Sequence Orthology more info
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleus	IDA Inferred from Direct Assay more info	PubMed

General protein information

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Preferred Names: nuclear receptor ROR-beta

Names: nuclear receptor RZR-beta; nuclear receptor subfamily 1 group F member 2; retinoid-related orphan receptor-beta

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_001043354.2 → NP_001036819.1 nuclear receptor ROR-beta isoform 1

See identical proteins and their annotated locations for NP_001036819.1

Status: VALIDATED

Description

Transcript Variant: This variant (1) has an alternate exon in place of the first exon compared to variant 2. The resulting isoform (1) has a shorter and distinct N-terminus compared to isoform 2.

Source sequence(s)

AC116594, AC140458, AK134790, BC058269, CJ057253

Consensus CDS

CCDS37932.1

UniProtKB/Swiss-Prot

Q8R1B8

Related

ENSMUSP00000108451.2, ENSMUST00000112832.8

Conserved Domains (2) summary

cd06939
Location:210 → 450

NR_LBD_ROR_like; The ligand binding domain of Retinoid-related orphan receptors, of the nuclear receptor superfamily

cd06968
Location:3 → 97

NR_DBD_ROR; DNA-binding domain of Retinoid-related orphan receptors (RORs) is composed of two C4-type zinc fingers
NM_001289921.1 → NP_001276850.1 nuclear receptor ROR-beta isoform 3

See identical proteins and their annotated locations for NP_001276850.1

Status: VALIDATED

Description

Transcript Variant: This variant (3) contains an alternate exon compared to variant 2. The resulting isoform (3) is shorter at the N-terminus compared to isoform 2.

Source sequence(s)

AC116594, AC140458, BC024842

Consensus CDS

CCDS79697.1

UniProtKB/TrEMBL

A0A0R4J1H4

Related

ENSMUSP00000108447.2, ENSMUST00000112828.8

Conserved Domains (2) summary

cd06939
Location:136 → 376

NR_LBD_ROR_like; The ligand binding domain of Retinoid-related orphan receptors, of the nuclear receptor superfamily

cl02596
Location:1 → 23

NR_DBD_like; DNA-binding domain of nuclear receptors is composed of two C4-type zinc fingers
NM_146095.4 → NP_666207.3 nuclear receptor ROR-beta isoform 2

See identical proteins and their annotated locations for NP_666207.3

Status: VALIDATED

Description

Transcript Variant: This variant (2) encodes the longest isoform (2).

Source sequence(s)

AC116594, AC140458, BC024842, BC058269, DQ779924

Consensus CDS

CCDS37933.1

UniProtKB/Swiss-Prot

Q0PQZ2, Q0PQZ3, Q1MVR9, Q8R1B8

Related

ENSMUSP00000047597.9, ENSMUST00000040153.15

Conserved Domains (2) summary

cd06939
Location:221 → 461

NR_LBD_ROR_like; The ligand binding domain of Retinoid-related orphan receptors, of the nuclear receptor superfamily

cd06968
Location:14 → 108

NR_DBD_ROR; DNA-binding domain of Retinoid-related orphan receptors (RORs) is composed of two C4-type zinc fingers

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

Reference GRCm39 C57BL/6J

Genomic

NC_000085.7 Reference GRCm39 C57BL/6J

Range

18907966..19088560 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_036161552.1 → XP_036017445.1 nuclear receptor ROR-beta isoform X1

UniProtKB/TrEMBL

A0A0R4J1H4

Conserved Domains (2) summary

cd06939
Location:136 → 376

NR_LBD_ROR_like; The ligand binding domain of Retinoid-related orphan receptors, of the nuclear receptor superfamily

cl02596
Location:1 → 23

NR_DBD_like; DNA-binding domain of nuclear receptors is composed of two C4-type zinc fingers