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Rai1 retinoic acid induced 1 [ Rattus norvegicus (Norway rat) ]

Gene ID: 303188, updated on 4-Jan-2025

Summary

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Official Symbol
Rai1provided by RGD
Official Full Name
retinoic acid induced 1provided by RGD
Primary source
RGD:1308500
See related
EnsemblRapid:ENSRNOG00000060615 AllianceGenome:RGD:1308500
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Rattus norvegicus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Summary
Predicted to enable metal ion binding activity. Predicted to be involved in circadian regulation of gene expression; positive regulation of DNA-templated transcription; and regulation of transcription by RNA polymerase II. Predicted to act upstream of or within regulation of growth and skeletal system development. Predicted to be located in nucleoplasm. Predicted to be active in nucleus. 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, Jan 2025]
Expression
Biased expression in Thymus (RPKM 78.3), Adrenal (RPKM 57.5) and 9 other tissues See more
Orthologs
human mouse all
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Genomic context

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See Rai1 in Genome Data Viewer
Location:
10q22
Exon count:
9
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 10 NC_086028.1 (45412748..45507747)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 10 NC_051345.1 (44913231..45008232)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 10 NC_005109.4 (46511271..46571591)

Chromosome 10 - NC_086028.1Genomic Context describing neighboring genes Neighboring gene DnaJ heat shock protein family (Hsp40) member A1, pseudogene 3 Neighboring gene phosphatidylethanolamine N-methyltransferase Neighboring gene uncharacterized LOC102549418 Neighboring gene sterol regulatory element binding transcription factor 1 Neighboring gene target of myb1 like 2 membrane trafficking protein Neighboring gene dynein regulatory complex subunit 3 Neighboring gene ATP synthase mitochondrial F1 complex assembly factor 2 Neighboring gene GID complex subunit 4

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
  • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
  • BioProject: PRJNA238328
  • Publication: PMID 24510058
  • Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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Related articles in PubMed

  1. Inactivation of Rai1 in mice recapitulates phenotypes observed in chromosome engineered mouse models for Smith-Magenis syndrome. Bi W, et al. Hum Mol Genet, 2005 Apr 15. PMID 15746153
  2. Mutations in RAI1 associated with Smith-Magenis syndrome. Slager RE, et al. Nat Genet, 2003 Apr. PMID 12652298
  3. Smith-Magenis syndrome results in disruption of CLOCK gene transcription and reveals an integral role for RAI1 in the maintenance of circadian rhythmicity. Williams SR, et al. Am J Hum Genet, 2012 Jun 8. PMID 22578325, Free PMC Article
  4. Penetrance of craniofacial anomalies in mouse models of Smith-Magenis syndrome is modified by genomic sequence surrounding Rai1: not all null alleles are alike. Yan J, et al. Am J Hum Genet, 2007 Mar. PMID 17273973, Free PMC Article
  5. Gene and alternative splicing annotation with AIR. Florea L, et al. Genome Res, 2005 Jan. PMID 15632090, Free PMC Article

See all (7) citations in PubMed

GeneRIFs: Gene References Into Functions

General gene information

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Markers

Homology

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
involved_in biological_process ND
No biological Data available
more info
  
involved_in circadian regulation of gene expression IBA
Inferred from Biological aspect of Ancestor
more info
  
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 ISO
Inferred from Sequence Orthology
more info
  
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 ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within skeletal system development ISO
Inferred from Sequence Orthology
more info
  
Component Evidence Code Pubs
located_in nucleoplasm 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 ISO
Inferred from Sequence Orthology
more info
  

General protein information

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Preferred Names
retinoic acid-induced protein 1

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)

  1. NM_001271207.1 → NP_001258136.1  retinoic acid-induced protein 1

    Status: VALIDATED

    Source sequence(s)
    JAXUCZ010000010
    UniProtKB/TrEMBL
    A0A0G2K4G0, A0A8I6GEB6
    Related
    ENSRNOP00000073029.1, ENSRNOT00000080828.3
    Conserved Domains (2) summary
    PHA03247
    Location:941 → 1200
    PHA03247; large tegument protein UL36; Provisional
    cl22851
    Location:1653 → 1882
    PHD_SF; PHD finger superfamily

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

Reference GRCr8

Genomic

  1. NC_086028.1 Reference GRCr8

    Range
    45412748..45507747
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_063269004.1 → XP_063125074.1  retinoic acid-induced protein 1 isoform X1

    UniProtKB/TrEMBL
    A0A0G2K4G0, A0A8I6GEB6

  2. XM_039085953.2 → XP_038941881.1  retinoic acid-induced protein 1 isoform X1

    UniProtKB/TrEMBL
    A0A0G2K4G0, A0A8I6GEB6
    Conserved Domains (2) summary
    PHA03247
    Location:941 → 1200
    PHA03247; large tegument protein UL36; Provisional
    cl22851
    Location:1653 → 1882
    PHD_SF; PHD finger superfamily

  3. XM_039085955.2 → XP_038941883.1  retinoic acid-induced protein 1 isoform X1

    UniProtKB/TrEMBL
    A0A0G2K4G0, A0A8I6GEB6
    Conserved Domains (2) summary
    PHA03247
    Location:941 → 1200
    PHA03247; large tegument protein UL36; Provisional
    cl22851
    Location:1653 → 1882
    PHD_SF; PHD finger superfamily

  4. XM_063269005.1 → XP_063125075.1  retinoic acid-induced protein 1 isoform X1

    UniProtKB/TrEMBL
    A0A0G2K4G0, A0A8I6GEB6

  5. XM_008767819.4 → XP_008766041.2  retinoic acid-induced protein 1 isoform X1

    UniProtKB/TrEMBL
    A0A0G2K4G0, A0A8I6GEB6
    Conserved Domains (2) summary
    PHA03247
    Location:941 → 1200
    PHA03247; large tegument protein UL36; Provisional
    cl22851
    Location:1653 → 1882
    PHD_SF; PHD finger superfamily
Nucleotide Protein Strain
Heading Accession and Version

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