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Tox thymocyte selection-associated high mobility group box [ Rattus norvegicus (Norway rat) ]

Gene ID: 362481, updated on 2-Nov-2024

Summary

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Official Symbol
Toxprovided by RGD
Official Full Name
thymocyte selection-associated high mobility group boxprovided by RGD
Primary source
RGD:1310455
See related
EnsemblRapid:ENSRNOG00000010777 AllianceGenome:RGD:1310455
Gene type
protein coding
RefSeq status
PROVISIONAL
Organism
Rattus norvegicus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Summary
Predicted to enable chromatin DNA binding activity. Predicted to be involved in several processes, including cerebral cortex neuron differentiation; lymphocyte differentiation; and regulation of positive thymic T cell selection. Predicted to act upstream of or within hematopoietic or lymphoid organ development; lymphocyte differentiation; and positive regulation of natural killer cell differentiation. Predicted to be active in nucleus. Orthologous to human TOX (thymocyte selection associated high mobility group box). [provided by Alliance of Genome Resources, Nov 2024]
Expression
Biased expression in Thymus (RPKM 89.7), Heart (RPKM 26.3) and 8 other tissues See more
Orthologs
human mouse all
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Genomic context

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See Tox in Genome Data Viewer
Location:
5q12
Exon count:
12
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 5 NC_086023.1 (24672487..24968754, complement)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 5 NC_051340.1 (19874994..20171272, complement)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 5 NC_005104.4 (19892698..20189721, complement)

Chromosome 5 - NC_086023.1Genomic Context describing neighboring genes Neighboring gene G3BP stress granule assembly factor 1, pseudogene 2 Neighboring gene small nucleolar RNA SNORA17 Neighboring gene uncharacterized LOC134478930 Neighboring gene small nucleolar RNA SNORA17 Neighboring gene eukaryotic translation initiation factor 1, pseudogene 8

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 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. TOX regulates the differentiation of human natural killer cells from hematopoietic stem cells in vitro. Yun S, et al. Immunol Lett, 2011 Apr 30. PMID 21126536
  2. TOX: an HMG box protein implicated in the regulation of thymocyte selection. Wilkinson B, et al. Nat Immunol, 2002 Mar. PMID 11850626
  3. TOX provides a link between calcineurin activation and CD8 lineage commitment. Aliahmad P, et al. J Exp Med, 2004 Apr 19. PMID 15078895, Free PMC Article
  4. Development of all CD4 T lineages requires nuclear factor TOX. Aliahmad P, et al. J Exp Med, 2008 Jan 21. PMID 18195075, Free PMC Article
  5. Tox: a multifunctional transcription factor and novel regulator of mammalian corticogenesis. Artegiani B, et al. EMBO J, 2015 Apr 1. PMID 25527292, 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 chromatin DNA binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables chromatin DNA binding ISO
Inferred from Sequence Orthology
more info
  
Process Evidence Code Pubs
involved_in CD4-positive, CD25-positive, alpha-beta regulatory T cell lineage commitment ISO
Inferred from Sequence Orthology
more info
  
involved_in CD4-positive, alpha-beta T cell lineage commitment ISO
Inferred from Sequence Orthology
more info
  
involved_in CD8-positive, alpha-beta T cell lineage commitment ISO
Inferred from Sequence Orthology
more info
  
involved_in NK T cell lineage commitment ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within Peyer's patch development ISO
Inferred from Sequence Orthology
more info
  
involved_in cerebral cortex neuron differentiation ISO
Inferred from Sequence Orthology
more info
  
involved_in leukocyte differentiation IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within lymph node development ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within lymphocyte differentiation ISO
Inferred from Sequence Orthology
more info
  
involved_in natural killer cell differentiation ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within positive regulation of natural killer cell differentiation ISO
Inferred from Sequence Orthology
more info
  
involved_in positive regulation of neural precursor cell proliferation ISO
Inferred from Sequence Orthology
more info
  
involved_in positive regulation of neuron projection development ISO
Inferred from Sequence Orthology
more info
  
involved_in positive regulation of transcription by RNA polymerase II ISO
Inferred from Sequence Orthology
more info
  
involved_in regulation of positive thymic T cell selection 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
  
Component Evidence Code Pubs
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
thymocyte selection-associated high mobility group box protein TOX
Names
thymocyte selection-associated HMG box

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_001108654.1 → NP_001102124.1  thymocyte selection-associated high mobility group box protein TOX

    See identical proteins and their annotated locations for NP_001102124.1

    Status: PROVISIONAL

    Source sequence(s)
    CH473984
    UniProtKB/TrEMBL
    A0A8I6B6M0, A6JFP6, D4A1U5
    Related
    ENSRNOP00000014661.3, ENSRNOT00000014661.5
    Conserved Domains (2) summary
    COG5648
    Location:257 → 360
    NHP6B; Chromatin-associated proteins containing the HMG domain [Chromatin structure and dynamics]
    cd00084
    Location:261 → 310
    HMG-box; High Mobility Group (HMG)-box is found in a variety of eukaryotic chromosomal proteins and transcription factors. HMGs bind to the minor groove of DNA and have been classified by DNA binding preferences. Two phylogenically distinct groups of Class I ...

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_086023.1 Reference GRCr8

    Range
    24672487..24968754 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006237844.5 → XP_006237906.1  thymocyte selection-associated high mobility group box protein TOX isoform X2

    See identical proteins and their annotated locations for XP_006237906.1

    UniProtKB/TrEMBL
    A0A8I6B6M0, A6JFP6, D4A1U5
    Related
    ENSRNOP00000098002.2, ENSRNOT00000102072.2
    Conserved Domains (2) summary
    COG5648
    Location:257 → 360
    NHP6B; Chromatin-associated proteins containing the HMG domain [Chromatin structure and dynamics]
    cd00084
    Location:261 → 310
    HMG-box; High Mobility Group (HMG)-box is found in a variety of eukaryotic chromosomal proteins and transcription factors. HMGs bind to the minor groove of DNA and have been classified by DNA binding preferences. Two phylogenically distinct groups of Class I ...

  2. XM_017593467.3 → XP_017448956.1  thymocyte selection-associated high mobility group box protein TOX isoform X2

    UniProtKB/TrEMBL
    A0A8I6B6M0, A6JFP6, D4A1U5
    Conserved Domains (2) summary
    COG5648
    Location:257 → 360
    NHP6B; Chromatin-associated proteins containing the HMG domain [Chromatin structure and dynamics]
    cd00084
    Location:261 → 310
    HMG-box; High Mobility Group (HMG)-box is found in a variety of eukaryotic chromosomal proteins and transcription factors. HMGs bind to the minor groove of DNA and have been classified by DNA binding preferences. Two phylogenically distinct groups of Class I ...

  3. XM_039110215.2 → XP_038966143.1  thymocyte selection-associated high mobility group box protein TOX isoform X2

    UniProtKB/TrEMBL
    A0A8I6B6M0, A6JFP6, D4A1U5
    Related
    ENSRNOP00000112043.1, ENSRNOT00000133851.1
    Conserved Domains (2) summary
    COG5648
    Location:257 → 360
    NHP6B; Chromatin-associated proteins containing the HMG domain [Chromatin structure and dynamics]
    cd00084
    Location:261 → 310
    HMG-box; High Mobility Group (HMG)-box is found in a variety of eukaryotic chromosomal proteins and transcription factors. HMGs bind to the minor groove of DNA and have been classified by DNA binding preferences. Two phylogenically distinct groups of Class I ...

  4. XM_063287898.1 → XP_063143968.1  thymocyte selection-associated high mobility group box protein TOX isoform X1

    UniProtKB/TrEMBL
    A0A8I6AU85
    Related
    ENSRNOP00000097335.1, ENSRNOT00000099543.2
Nucleotide Protein Strain
Heading Accession and Version

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