Format

Send to:

Choose Destination

Links from PubMed

    • Showing Current items.

    Rxra retinoid X receptor alpha [ Mus musculus (house mouse) ]

    Gene ID: 20181, updated on 3-Jul-2016
    Official Symbol
    Rxraprovided by MGI
    Official Full Name
    retinoid X receptor alphaprovided by MGI
    Primary source
    MGI:MGI:98214
    See related
    Ensembl:ENSMUSG00000015846 Vega:OTTMUSG00000012047
    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
    Nr2b1; RXRalpha1; 9530071D11Rik
    Orthologs
    Location:
    2 A3; 2 19.38 cM
    Exon count:
    13
    Annotation release Status Assembly Chr Location
    106 current GRCm38.p4 (GCF_000001635.24) 2 NC_000068.7 (27676445..27763319)
    Build 37.2 previous assembly MGSCv37 (GCF_000001635.18) 2 NC_000068.6 (27532721..27618839)

    Chromosome 2 - NC_000068.7Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC105244102 Neighboring gene predicted gene, 39776 Neighboring gene predicted gene, 39777 Neighboring gene collagen, type V, alpha 1

    GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    Products Interactant Other Gene Complex Source Pubs Description

    Markers

    Homology

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    9-cis retinoic acid receptor activity IDA
    Inferred from Direct Assay
    more info
    PubMed 
    DNA binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    DNA binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    DNA binding ISO
    Inferred from Sequence Orthology
    more info
     
    RNA polymerase II regulatory region sequence-specific DNA binding ISO
    Inferred from Sequence Orthology
    more info
     
    RNA polymerase II transcription factor activity, ligand-activated sequence-specific DNA binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    contributes_to RNA polymerase II transcription factor activity, ligand-activated sequence-specific DNA binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    RNA polymerase II transcription factor activity, ligand-activated sequence-specific DNA binding ISO
    Inferred from Sequence Orthology
    more info
     
    chromatin DNA binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    contributes_to double-stranded DNA binding ISO
    Inferred from Sequence Orthology
    more info
     
    enzyme binding 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 complex binding ISO
    Inferred from Sequence Orthology
    more info
     
    protein domain specific binding ISO
    Inferred from Sequence Orthology
    more info
     
    protein heterodimerization activity 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
     
    retinoic acid-responsive element binding ISO
    Inferred from Sequence Orthology
    more info
     
    sequence-specific DNA binding IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    sequence-specific DNA binding ISO
    Inferred from Sequence Orthology
    more info
     
    steroid hormone receptor activity IEA
    Inferred from Electronic Annotation
    more info
     
    transcription factor activity, sequence-specific DNA binding IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    transcription factor activity, sequence-specific DNA binding ISO
    Inferred from Sequence Orthology
    more info
     
    transcription factor binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    contributes_to transcription regulatory region DNA binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    contributes_to transcription regulatory region DNA binding ISO
    Inferred from Sequence Orthology
    more info
     
    vitamin D receptor binding ISO
    Inferred from Sequence Orthology
    more info
     
    contributes_to vitamin D response element binding ISO
    Inferred from Sequence Orthology
    more info
     
    zinc ion binding IEA
    Inferred from Electronic Annotation
    more info
     
    Process Evidence Code Pubs
    angiogenesis involved in coronary vascular morphogenesis TAS
    Traceable Author Statement
    more info
    PubMed 
    camera-type eye development IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    cardiac muscle cell differentiation TAS
    Traceable Author Statement
    more info
    PubMed 
    cardiac muscle cell proliferation IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    cardiac muscle cell proliferation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    cardiac muscle cell proliferation TAS
    Traceable Author Statement
    more info
    PubMed 
    embryo implantation IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    heart development IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    heart development TAS
    Traceable Author Statement
    more info
    PubMed 
    heart morphogenesis TAS
    Traceable Author Statement
    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 
    mesenchyme development TAS
    Traceable Author Statement
    more info
    PubMed 
    modulation by virus of host morphology or physiology ISO
    Inferred from Sequence Orthology
    more info
     
    negative regulation of cell proliferation ISO
    Inferred from Sequence Orthology
    more info
     
    negative regulation of gene expression TAS
    Traceable Author Statement
    more info
    PubMed 
    negative regulation of transcription from RNA polymerase II promoter IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    negative regulation of transcription from RNA polymerase II promoter ISO
    Inferred from Sequence Orthology
    more info
     
    peroxisome proliferator activated receptor signaling pathway ISO
    Inferred from Sequence Orthology
    more info
     
    placenta development IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    positive regulation of apoptotic process ISO
    Inferred from Sequence Orthology
    more info
     
    positive regulation of transcription from RNA polymerase II promoter IDA
    Inferred from Direct Assay
    more info
    PubMed 
    positive regulation of transcription from RNA polymerase II promoter IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    positive regulation of transcription from RNA polymerase II promoter IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    positive regulation of transcription from RNA polymerase II promoter ISO
    Inferred from Sequence Orthology
    more info
     
    positive regulation of transcription from RNA polymerase II promoter involved in cellular response to chemical stimulus IDA
    Inferred from Direct Assay
    more info
    PubMed 
    positive regulation of transcription, DNA-templated IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    positive regulation of transcription, DNA-templated TAS
    Traceable Author Statement
    more info
    PubMed 
    positive regulation of translational initiation by iron IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    protein homotetramerization ISO
    Inferred from Sequence Orthology
    more info
     
    regulation of branching involved in prostate gland morphogenesis IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    regulation of myelination ISO
    Inferred from Sequence Orthology
    more info
     
    regulation of transcription from RNA polymerase II promoter IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    regulation of transcription, DNA-templated IDA
    Inferred from Direct Assay
    more info
    PubMed 
    regulation of transcription, DNA-templated ISO
    Inferred from Sequence Orthology
    more info
     
    response to glucocorticoid ISO
    Inferred from Sequence Orthology
    more info
     
    response to retinoic acid ISO
    Inferred from Sequence Orthology
    more info
     
    retinoic acid receptor signaling pathway IDA
    Inferred from Direct Assay
    more info
    PubMed 
    retinoic acid receptor signaling pathway IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    retinoic acid receptor signaling pathway ISO
    Inferred from Sequence Orthology
    more info
     
    secretory columnal luminar epithelial cell differentiation involved in prostate glandular acinus development IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    steroid hormone mediated signaling pathway IEA
    Inferred from Electronic Annotation
    more info
     
    transcription, DNA-templated 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 
    ventricular cardiac muscle tissue morphogenesis IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    visceral serous pericardium development TAS
    Traceable Author Statement
    more info
    PubMed 
    Component Evidence Code Pubs
    RNA polymerase II transcription factor complex IDA
    Inferred from Direct Assay
    more info
    PubMed 
    RNA polymerase II transcription factor complex ISO
    Inferred from Sequence Orthology
    more info
     
    axon ISO
    Inferred from Sequence Orthology
    more info
     
    nuclear chromatin ISO
    Inferred from Sequence Orthology
    more info
     
    nucleus IDA
    Inferred from Direct Assay
    more info
    PubMed 
    nucleus ISO
    Inferred from Sequence Orthology
    more info
     
    receptor complex ISO
    Inferred from Sequence Orthology
    more info
     
    Preferred Names
    retinoic acid receptor RXR-alpha
    Names
    RXR alpha 1
    nuclear receptor subfamily 2 group B member 1

    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_001290481.1NP_001277410.1  retinoic acid receptor RXR-alpha isoform 2

      See identical proteins and their annotated locations for NP_001277410.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) contains an alternate 5' terminal exon and it thus differs in the 5' UTR, lacks a portion of the 5' coding region, and initiates translation at a downstream in-frame start codon, compared to variant 1. The encoded isoform (2) is shorter at the N-terminus, compared to isoform 1. Both variants 2 and 3 encode isoform 2.
      Source sequence(s)
      AI647710, AK029121, BC138800
      Consensus CDS
      CCDS71011.1
      UniProtKB/TrEMBL
      A2AJP1, Q6LC96
      Related
      ENSMUSP00000097822, OTTMUSP00000012973, ENSMUST00000100251, OTTMUST00000028666
      Conserved Domains (3) summary
      cd06943
      Location:206417
      NR_LBD_RXR_like; The ligand binding domain of the retinoid X receptor and Ultraspiracle, members of nuclear receptor superfamily
      cd06956
      Location:110186
      NR_DBD_RXR; DNA-binding domain of retinoid X receptor (RXR) is composed of two C4-type zinc fingers
      pfam11825
      Location:1104
      Nuc_recep-AF1; Nuclear/hormone receptor activator site AF-1
    2. NM_001290482.1NP_001277411.1  retinoic acid receptor RXR-alpha isoform 2

      See identical proteins and their annotated locations for NP_001277411.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) contains an alternate 5' terminal exon and it thus differs in the 5' UTR, lacks a portion of the 5' coding region, and initiates translation at a downstream in-frame start codon, compared to variant 1. The encoded isoform (2) is shorter at the N-terminus, compared to isoform 1. Both variants 2 and 3 encode isoform 2.
      Source sequence(s)
      AK029121, AL772166, BC138800
      Consensus CDS
      CCDS71011.1
      UniProtKB/TrEMBL
      A2AJP1, Q6LC96
      Related
      ENSMUSP00000109567, OTTMUSP00000012974, ENSMUST00000113934, OTTMUST00000028667
      Conserved Domains (3) summary
      cd06943
      Location:206417
      NR_LBD_RXR_like; The ligand binding domain of the retinoid X receptor and Ultraspiracle, members of nuclear receptor superfamily
      cd06956
      Location:110186
      NR_DBD_RXR; DNA-binding domain of retinoid X receptor (RXR) is composed of two C4-type zinc fingers
      pfam11825
      Location:1104
      Nuc_recep-AF1; Nuclear/hormone receptor activator site AF-1
    3. NM_011305.3NP_035435.1  retinoic acid receptor RXR-alpha isoform 1

      See identical proteins and their annotated locations for NP_035435.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longest transcript and encodes the longer isoform (1).
      Source sequence(s)
      AK029121, AK144675, X66223
      Consensus CDS
      CCDS15830.1
      UniProtKB/Swiss-Prot
      P28700
      UniProtKB/TrEMBL
      A2AJP1, Q3UMU4
      Related
      ENSMUSP00000076491, OTTMUSP00000012972, ENSMUST00000077257, OTTMUST00000028665
      Conserved Domains (3) summary
      cd06943
      Location:234445
      NR_LBD_RXR_like; The ligand binding domain of the retinoid X receptor and Ultraspiracle, members of nuclear receptor superfamily
      cd06956
      Location:138214
      NR_DBD_RXR; DNA-binding domain of retinoid X receptor (RXR) is composed of two C4-type zinc fingers
      pfam11825
      Location:18132
      Nuc_recep-AF1; Nuclear/hormone receptor activator site AF-1

    RefSeqs of Annotated Genomes: Mus musculus Annotation Release 106 details...

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

    Reference GRCm38.p4 C57BL/6J

    Genomic

    1. NC_000068.7 Reference GRCm38.p4 C57BL/6J

      Range
      27676445..27763319
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006497805.1XP_006497868.1  

      See identical proteins and their annotated locations for XP_006497868.1

      UniProtKB/TrEMBL
      Q6LC96
      Conserved Domains (3) summary
      cd06943
      Location:206417
      NR_LBD_RXR_like; The ligand binding domain of the retinoid X receptor and Ultraspiracle, members of nuclear receptor superfamily
      cd06956
      Location:110186
      NR_DBD_RXR; DNA-binding domain of retinoid X receptor (RXR) is composed of two C4-type zinc fingers
      pfam11825
      Location:1104
      Nuc_recep-AF1; Nuclear/hormone receptor activator site AF-1