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    Rai1 retinoic acid induced 1 [ Mus musculus (house mouse) ]

    Gene ID: 19377, updated on 5-Mar-2024

    Summary

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    Official Symbol
    Rai1provided by MGI
    Official Full Name
    retinoic acid induced 1provided by MGI
    Primary source
    MGI:MGI:103291
    See related
    Ensembl:ENSMUSG00000062115 AllianceGenome:MGI:103291
    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
    Gt1
    Summary
    Predicted to enable metal ion binding activity. Involved in circadian regulation of gene expression. Acts upstream of or within regulation of growth; regulation of transcription by RNA polymerase II; and skeletal system development. Located in nucleus. Is expressed in several structures, including alimentary system; central nervous system; genitourinary system; limb bud; and sensory organ. Used to study Potocki-Lupski syndrome and Smith-Magenis syndrome. Human ortholog(s) of this gene implicated in Smith-Magenis syndrome. Orthologous to human RAI1 (retinoic acid induced 1). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Ubiquitous expression in thymus adult (RPKM 23.6), adrenal adult (RPKM 10.9) and 25 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Rai1 in Genome Data Viewer
    Location:
    11 B1.3- B2; 11 37.81 cM
    Exon count:
    8
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 11 NC_000077.7 (59995743..60090023)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 11 NC_000077.6 (60104917..60199197)

    Chromosome 11 - NC_000077.7Genomic Context describing neighboring genes Neighboring gene phosphatidylethanolamine N-methyltransferase Neighboring gene predicted gene, 53709 Neighboring gene CapStarr-seq enhancer MGSCv37_chr11:59846465-59846648 Neighboring gene predicted gene, 38498 Neighboring gene STARR-positive B cell enhancer ABC_E2355 Neighboring gene CapStarr-seq enhancer MGSCv37_chr11:59859961-59860160 Neighboring gene RIKEN cDNA 4930412M03 gene Neighboring gene CapStarr-seq enhancer MGSCv37_chr11:59928147-59928256 Neighboring gene CapStarr-seq enhancer MGSCv37_chr11:59927829-59927938 Neighboring gene CapStarr-seq enhancer MGSCv37_chr11:59928466-59928754 Neighboring gene STARR-positive B cell enhancer ABC_E1419 Neighboring gene predicted gene, 53710 Neighboring gene STARR-seq mESC enhancer starr_29638 Neighboring gene CapStarr-seq enhancer MGSCv37_chr11:59975000-59975201 Neighboring gene STARR-seq mESC enhancer starr_29640 Neighboring gene microRNA 6921 Neighboring gene microRNA 6922 Neighboring gene sterol regulatory element binding transcription factor 1

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • 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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    Related articles in PubMed

    1. rAAV-CRISPRa therapy corrects Rai1 haploinsufficiency and rescues selective disease features in Smith-Magenis syndrome mice. Chang HC, et al. J Biol Chem, 2023 Jan. PMID 36410433, Free PMC Article
    2. Loss of Rai1 enhances hippocampal excitability and epileptogenesis in mouse models of Smith-Magenis syndrome. Chang YT, et al. Proc Natl Acad Sci U S A, 2022 Oct 25. PMID 36256819, Free PMC Article
    3. Rai1 frees mice from the repression of active wake behaviors by light. Diessler S, et al. Elife, 2017 May 26. PMID 28548639, Free PMC Article
    4. Dietary regimens modify early onset of obesity in mice haploinsufficient for Rai1. Alaimo JT, et al. PLoS One, 2014. PMID 25127133, Free PMC Article
    5. Correct developmental expression level of Rai1 in forebrain neurons is required for control of body weight, activity levels and learning and memory. Cao L, et al. Hum Mol Genet, 2014 Apr 1. PMID 24218365

    See all (52) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Comparative analyses of the Smith-Magenis syndrome protein RAI1 in mice and common marmoset monkeys.
      Title: Comparative analyses of the Smith-Magenis syndrome protein RAI1 in mice and common marmoset monkeys.
    2. Smith-Magenis syndrome protein RAI1 regulates body weight homeostasis through hypothalamic BDNF-producing neurons and neurotrophin downstream signalling.
      Title: Smith-Magenis syndrome protein RAI1 regulates body weight homeostasis through hypothalamic BDNF-producing neurons and neurotrophin downstream signalling.
    3. Loss of Rai1 enhances hippocampal excitability and epileptogenesis in mouse models of Smith-Magenis syndrome.
      Title: Loss of Rai1 enhances hippocampal excitability and epileptogenesis in mouse models of Smith-Magenis syndrome.
    4. Temporal dissection of Rai1 function reveals brain-derived neurotrophic factor as a potential therapeutic target for Smith-Magenis syndrome.
      Title: Temporal dissection of Rai1 function reveals brain-derived neurotrophic factor as a potential therapeutic target for Smith-Magenis syndrome.
    5. A novel 5'-hydroxyl dinucleotide hydrolase activity for the DXO/Rai1 family of enzymes has been reported.
      Title: A novel 5'-hydroxyl dinucleotide hydrolase activity for the DXO/Rai1 family of enzymes.
    6. Haploinsufficiency of Retinoic Acid Induced 1 causes Smith-Magenis syndrome.
      Title: Early adolescent Rai1 reactivation reverses transcriptional and social interaction deficits in a mouse model of Smith-Magenis syndrome.
    7. Rai1 preferentially occupies DNA regions near active promoters and promotes the expression of a group of genes involved in circuit assembly and neuronal communication. Behavioral analyses demonstrated that pan-neural loss of Rai1 causes deficits in motor function, learning, and food intake.
      Title: Molecular and Neural Functions of Rai1, the Causal Gene for Smith-Magenis Syndrome.
    8. Mice haploinsufficient for Rai1 fed a high carbohydrate or a high fat diet gained weight at a significantly faster rate than their wild type littermates.
      Title: Dietary regimens modify early onset of obesity in mice haploinsufficient for Rai1.
    9. Viral pseudo-enzymes activate RIG-I via deamidation to evade cytokine production.
      Title: Viral pseudo-enzymes activate RIG-I via deamidation to evade cytokine production.
    10. Rai1 dosage in forebrain neurons is critical during the development and is related to body weight regulation, activity levels and learning and memory.
      Title: Correct developmental expression level of Rai1 in forebrain neurons is required for control of body weight, activity levels and learning and memory.
    Submit: New GeneRIF Correction See all GeneRIFs (22)

    Variation

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    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Targeted (5)  1 citation
    • Endonuclease-mediated (2) 

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in circadian regulation of gene expression IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in circadian regulation of gene expression IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in circadian regulation of gene expression ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within negative regulation of multicellular organism growth IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in positive regulation of DNA-templated transcription ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulation of transcription by RNA polymerase II IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within regulation of transcription by RNA polymerase II IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    acts_upstream_of_or_within rhythmic process IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within skeletal system development IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in cytoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    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
    retinoic acid-induced protein 1

    NCBI Reference Sequences (RefSeq)

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    NEW Try the new Transcript table

    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_001037764.1 → NP_001032853.1  retinoic acid-induced protein 1

      See identical proteins and their annotated locations for NP_001032853.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) differs in the 5' UTR compared to variant 1. Variants 1 and 2 encode the same protein.
      Source sequence(s)
      AL669954, AY548172
      Consensus CDS
      CCDS24784.1
      UniProtKB/Swiss-Prot
      B1AU87, Q61818, Q6ZPH7, Q8CEV1
      UniProtKB/TrEMBL
      Q5QGZ6
      Related
      ENSMUSP00000126183.2, ENSMUST00000171108.8
      Conserved Domains (2) summary
      PHA03247
      Location:939 → 1375
      PHA03247; large tegument protein UL36; Provisional
      cl22851
      Location:1655 → 1884
      PHD_SF; PHD finger superfamily

    2. NM_009021.2 → NP_033047.2  retinoic acid-induced protein 1

      See identical proteins and their annotated locations for NP_033047.2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longer transcript. Variants 1 and 2 encode the same protein.
      Source sequence(s)
      AK154252, AL669954, BC049785
      Consensus CDS
      CCDS24784.1
      UniProtKB/Swiss-Prot
      B1AU87, Q61818, Q6ZPH7, Q8CEV1
      UniProtKB/TrEMBL
      Q5QGZ6
      Related
      ENSMUSP00000070896.7, ENSMUST00000064190.13
      Conserved Domains (2) summary
      PHA03247
      Location:939 → 1375
      PHA03247; large tegument protein UL36; Provisional
      cl22851
      Location:1655 → 1884
      PHD_SF; PHD finger superfamily

    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

    1. NC_000077.7 Reference GRCm39 C57BL/6J

      Range
      59995743..60090023
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_036156456.1 → XP_036012349.1  retinoic acid-induced protein 1 isoform X1

      UniProtKB/Swiss-Prot
      B1AU87, Q61818, Q6ZPH7, Q8CEV1
      UniProtKB/TrEMBL
      Q5QGZ6
      Related
      ENSMUSP00000099749.2, ENSMUST00000102688.2
      Conserved Domains (2) summary
      PHA03247
      Location:939 → 1375
      PHA03247; large tegument protein UL36; Provisional
      cl22851
      Location:1655 → 1884
      PHD_SF; PHD finger superfamily

    RNA

    1. XR_004936881.1 RNA Sequence

    2. XR_879537.3 RNA Sequence

    3. XR_004936878.1 RNA Sequence

    4. XR_004936879.1 RNA Sequence

    5. XR_004936880.1 RNA Sequence

    6. XR_879538.3 RNA Sequence

    7. XR_004936875.1 RNA Sequence

    8. XR_003949361.2 RNA Sequence

    9. XR_004936877.1 RNA Sequence

    10. XR_879539.4 RNA Sequence

    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q61818.3 GenPept UniProtKB/Swiss-Prot:Q61818

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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