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

Gene ID: 225998, updated on 28-Oct-2019

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
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

Genomic context

See Rorb in Genome Data Viewer
Location:
19; 19 B
Exon count:
12
Annotation release Status Assembly Chr Location
108 current GRCm38.p6 (GCF_000001635.26) 19 NC_000085.6 (18930609..19111196, complement)
Build 37.2 previous assembly MGSCv37 (GCF_000001635.18) 19 NC_000085.5 (19011058..19185686, complement)

Chromosome 19 - NC_000085.6Genomic Context describing neighboring genes Neighboring gene predicted gene, 23238 Neighboring gene predicted gene, 41814 Neighboring gene transient receptor potential cation channel, subfamily M, member 6 Neighboring gene predicted gene, 50212 Neighboring gene predicted gene, 25437 Neighboring gene predicted gene, 41815

Genomic regions, transcripts, and products

Expression

  • 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

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Variation

Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Spontaneous (1) 
  • Targeted (9)  1 citation
  • Chemically induced (ENU) (3) 

Pathways from BioSystems

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • MGC38728

Gene Ontology Provided by MGI

Function Evidence Code Pubs
DNA binding IEA
Inferred from Electronic Annotation
more info
 
DNA-binding transcription activator activity, RNA polymerase II-specific IDA
Inferred from Direct Assay
more info
PubMed 
DNA-binding transcription factor activity IDA
Inferred from Direct Assay
more info
PubMed 
DNA-binding transcription factor activity ISO
Inferred from Sequence Orthology
more info
 
RNA polymerase II proximal promoter sequence-specific DNA binding IDA
Inferred from Direct Assay
more info
PubMed 
melatonin receptor activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
melatonin receptor activity ISO
Inferred from Sequence Orthology
more info
 
metal ion binding IEA
Inferred from Electronic Annotation
more info
 
nuclear receptor activity IEA
Inferred from Electronic Annotation
more info
 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
sequence-specific DNA binding IDA
Inferred from Direct Assay
more info
PubMed 
steroid hormone receptor activity IEA
Inferred from Electronic Annotation
more info
 
transcription factor binding IPI
Inferred from Physical Interaction
more info
PubMed 
zinc ion binding IEA
Inferred from Electronic Annotation
more info
 
Process Evidence Code Pubs
amacrine cell differentiation IMP
Inferred from Mutant Phenotype
more info
PubMed 
cellular response to retinoic acid ISO
Inferred from Sequence Orthology
more info
 
eye photoreceptor cell development IMP
Inferred from Mutant Phenotype
more info
PubMed 
multicellular organism development IEA
Inferred from Electronic Annotation
more info
 
negative regulation of osteoblast differentiation IDA
Inferred from Direct Assay
more info
PubMed 
negative regulation of transcription, DNA-templated ISO
Inferred from Sequence Orthology
more info
 
positive regulation of transcription by RNA polymerase II IDA
Inferred from Direct Assay
more info
PubMed 
positive regulation of transcription, DNA-templated IDA
Inferred from Direct Assay
more info
PubMed 
positive regulation of transcription, DNA-templated ISO
Inferred from Sequence Orthology
more info
 
regulation of circadian rhythm IMP
Inferred from Mutant Phenotype
more info
PubMed 
regulation of transcription, DNA-templated IEA
Inferred from Electronic Annotation
more info
 
response to stimulus IEA
Inferred from Electronic Annotation
more info
 
retina development in camera-type eye IMP
Inferred from Mutant Phenotype
more info
PubMed 
retinal cone cell development IDA
Inferred from Direct Assay
more info
PubMed 
retinal rod cell development IMP
Inferred from Mutant Phenotype
more info
PubMed 
rhythmic process IEA
Inferred from Electronic Annotation
more info
 
visual perception IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
nucleoplasm ISO
Inferred from Sequence Orthology
more info
 
nucleus IDA
Inferred from Direct Assay
more info
PubMed 

General protein information

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)

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)

  1. NM_001043354.2NP_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
    ENSMUSP00000108451.1, ENSMUST00000112832.7
    Conserved Domains (2) summary
    cd06939
    Location:210450
    NR_LBD_ROR_like; The ligand binding domain of Retinoid-related orphan receptors, of the nuclear receptor superfamily
    cd06968
    Location:397
    NR_DBD_ROR; DNA-binding domain of Retinoid-related orphan receptors (RORs) is composed of two C4-type zinc fingers
  2. NM_001289921.1NP_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/Swiss-Prot
    Q8R1B8
    UniProtKB/TrEMBL
    A0A0R4J1H4
    Related
    ENSMUSP00000108447.1, ENSMUST00000112828.7
    Conserved Domains (2) summary
    cd06939
    Location:136376
    NR_LBD_ROR_like; The ligand binding domain of Retinoid-related orphan receptors, of the nuclear receptor superfamily
    cl02596
    Location:123
    NR_DBD_like; DNA-binding domain of nuclear receptors is composed of two C4-type zinc fingers
  3. NM_146095.4NP_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
    Q8R1B8
    Related
    ENSMUSP00000047597.8, ENSMUST00000040153.14
    Conserved Domains (2) summary
    cd06939
    Location:221461
    NR_LBD_ROR_like; The ligand binding domain of Retinoid-related orphan receptors, of the nuclear receptor superfamily
    cd06968
    Location:14108
    NR_DBD_ROR; DNA-binding domain of Retinoid-related orphan receptors (RORs) is composed of two C4-type zinc fingers

RefSeqs of Annotated Genomes: Mus musculus Annotation Release 108 details...Open this link in a new tab

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

Reference GRCm38.p6 C57BL/6J

Genomic

  1. NC_000085.6 Reference GRCm38.p6 C57BL/6J

    Range
    18930609..19111196 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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