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    Tet3 tet methylcytosine dioxygenase 3 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 680576, updated on 2-Nov-2024

    Summary

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    Symbol
    Tet3provided by RGD
    Full Name
    tet methylcytosine dioxygenase 3provided by RGD
    Primary source
    RGD:1590584
    See related
    EnsemblRapid:ENSRNOG00000011387 AllianceGenome:RGD:1590584
    Gene type
    protein coding
    RefSeq status
    MODEL
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Summary
    Predicted to enable 5-methylcytosine dioxygenase activity; sequence-specific DNA binding activity; and zinc ion binding activity. Predicted to be involved in epigenetic programing of male pronucleus; positive regulation of transcription by RNA polymerase II; and protein O-linked glycosylation. Predicted to act upstream of or within positive regulation of gene expression via chromosomal CpG island demethylation. Predicted to be located in cytoplasm; female pronucleus; and male pronucleus. Predicted to be active in nucleus. Orthologous to human TET3 (tet methylcytosine dioxygenase 3). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in Lung (RPKM 53.7), Spleen (RPKM 52.7) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Tet3 in Genome Data Viewer
    Location:
    4q34
    Exon count:
    15
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 4 NC_086022.1 (117425106..117525495, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 4 NC_051339.1 (115867412..115964433, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 4 NC_005103.4 (115060702..115160800, complement)

    Chromosome 4 - NC_086022.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC134486597 Neighboring gene MOB kinase activator 1A Neighboring gene bolA family member 3 Neighboring gene uncharacterized LOC102548361 Neighboring gene uncharacterized LOC134486594 Neighboring gene deoxyguanosine kinase Neighboring gene uncharacterized LOC120102320

    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. Increased 5-hydroxymethylation levels in the hippocampus of rat extinguished from cocaine self-administration. Sadakierska-Chudy A, et al. Hippocampus, 2017 Jul. PMID 28422379
    2. Tet3 enhances IL-6 expression through up-regulation of 5-hmC in IL-6 promoter in chronic hypoxia induced atherosclerosis in offspring rats. Zhang P, et al. Life Sci, 2019 Sep 1. PMID 31252000
    3. Loss of 5-Hydroxymethylcytosine Is an Independent Unfavorable Prognostic Factor for Esophageal Squamous Cell Carcinoma. Shi X, et al. PLoS One, 2016. PMID 27050164, Free PMC Article
    4. The role of Tet3 DNA dioxygenase in epigenetic reprogramming by oocytes. Gu TP, et al. Nature, 2011 Sep 4. PMID 21892189
    5. 5-Hydroxymethylcytosine in the mammalian zygote is linked with epigenetic reprogramming. Wossidlo M, et al. Nat Commun, 2011. PMID 21407207

    See all (18) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. MiR-26b-5p/TET3 regulates the osteogenic differentiation of human bone mesenchymal stem cells and bone reconstruction in female rats with calvarial defects.
      Title: MiR-26b-5p/TET3 regulates the osteogenic differentiation of human bone mesenchymal stem cells and bone reconstruction in female rats with calvarial defects.
    2. Tet3 enhanced IL-6 expression though up-regulating 5-hmC percentage in the IL-6 promoter.
      Title: Tet3 enhances IL-6 expression through up-regulation of 5-hmC in IL-6 promoter in chronic hypoxia induced atherosclerosis in offspring rats.
    3. alterations in the Tet3 gene expression and the level of 5-hydroxymethylcytosine may play an important role in extinction learning and the reduction of subsequent cocaine seeking.
      Title: Increased 5-hydroxymethylation levels in the hippocampus of rat extinguished from cocaine self-administration.
    Submit: New GeneRIF Correction

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables 5-methylcytosine dioxygenase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables 5-methylcytosine dioxygenase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables RNA polymerase II cis-regulatory region sequence-specific DNA binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables methyl-CpG binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables zinc ion binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    involved_in biological_process ND
    No biological Data available
    more info
    		  
    involved_in chromosomal 5-methylcytosine DNA demethylation pathway IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in epigenetic programing of male pronucleus ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within positive regulation of gene expression via chromosomal CpG island demethylation ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of transcription by RNA polymerase II IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in positive regulation of transcription by RNA polymerase II ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in protein O-linked glycosylation ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    located_in chromosome IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in cytoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in female pronucleus ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in male pronucleus ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    probable methylcytosine dioxygenase TET3; methylcytosine dioxygenase TET3
    Names
    astrotactin-2-like
    tet oncogene family member 3

    NCBI Reference Sequences (RefSeq)

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    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_086022.1 Reference GRCr8

      Range
      117425106..117525495 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_063286845.1 → XP_063142915.1  methylcytosine dioxygenase TET3 isoform X2

      UniProtKB/TrEMBL
      A0A8I6A3Q7

    2. XM_008763095.4 → XP_008761317.1  methylcytosine dioxygenase TET3 isoform X1

      See identical proteins and their annotated locations for XP_008761317.1

      UniProtKB/TrEMBL
      D3ZQT7
      Conserved Domains (2) summary
      pfam02008
      Location:50 → 89
      zf-CXXC; CXXC zinc finger domain
      pfam12851
      Location:992 → 1119
      Tet_JBP; Oxygenase domain of the 2OGFeDO superfamily

    3. XM_039108717.2 → XP_038964645.1  methylcytosine dioxygenase TET3 isoform X2

      UniProtKB/TrEMBL
      A0A8I6A3Q7
      Related
      ENSRNOP00000087089.1, ENSRNOT00000111758.2
      Conserved Domains (4) summary
      PHA03247
      Location:281 → 740
      PHA03247; large tegument protein UL36; Provisional
      pfam02008
      Location:50 → 89
      zf-CXXC; CXXC zinc finger domain
      cd18897
      Location:816 → 1140
      TET3; oxygenase domain of ten-eleven translocation (TET)3 methylcytosine dioxygenase and similar proteins
      cl40427
      Location:1592 → 1754
      Tet_JBP; oxygenase domain of ten-eleven translocation (TET) enzymes, J-binding proteins (JBPs), and similar proteins

    4. XM_008763094.4 → XP_008761316.1  methylcytosine dioxygenase TET3 isoform X1

      See identical proteins and their annotated locations for XP_008761316.1

      UniProtKB/TrEMBL
      D3ZQT7
      Conserved Domains (2) summary
      pfam02008
      Location:50 → 89
      zf-CXXC; CXXC zinc finger domain
      pfam12851
      Location:992 → 1119
      Tet_JBP; Oxygenase domain of the 2OGFeDO superfamily

    5. XM_063286844.1 → XP_063142914.1  methylcytosine dioxygenase TET3 isoform X1

      UniProtKB/TrEMBL
      D3ZQT7
      Related
      ENSRNOP00000015296.6, ENSRNOT00000015296.9

    6. XM_001057850.8 → XP_001057850.2  methylcytosine dioxygenase TET3 isoform X3

      See identical proteins and their annotated locations for XP_001057850.2

      UniProtKB/TrEMBL
      A6IAM2
      Related
      ENSRNOP00000110839.1, ENSRNOT00000131739.1
      Conserved Domains (1) summary
      pfam12851
      Location:857 → 984
      Tet_JBP; Oxygenase domain of the 2OGFeDO superfamily

    RNA

    1. XR_005503660.2 RNA Sequence

    Nucleotide Protein Strain
    Heading Accession and Version

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