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    Supt3h SPT3 homolog, SAGA and STAGA complex component [ Rattus norvegicus (Norway rat) ]

    Gene ID: 685697, updated on 13-Apr-2024

    Summary

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    Official Symbol
    Supt3hprovided by RGD
    Official Full Name
    SPT3 homolog, SAGA and STAGA complex componentprovided by RGD
    Primary source
    RGD:1591316
    See related
    Ensembl:ENSRNOG00000020153 AllianceGenome:RGD:1591316
    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 transcription coactivator activity. Predicted to be involved in histone H3 acetylation and histone deubiquitination. Predicted to be located in nucleoplasm. Predicted to be part of SAGA complex and transcription factor TFTC complex. Orthologous to human SUPT3H (SPT3 homolog, SAGA and STAGA complex component). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in Testes (RPKM 23.8), Kidney (RPKM 19.8) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    Location:
    9q12-q13
    Exon count:
    19
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 9 NC_086027.1 (23375889..23704229, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 9 NC_051344.1 (15878296..16206768, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 9 NC_005108.4 (18249565..18604814, complement)

    Chromosome 9 - NC_086027.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC120094635 Neighboring gene YJU2 splicing factor, pseudogene 1 Neighboring gene uncharacterized LOC134480559 Neighboring gene RNA polymerase I subunit H, antisense Neighboring gene RUNX family transcription factor 2 Neighboring gene uncharacterized LOC120094793 Neighboring gene uncharacterized LOC134480269

    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. A human SPT3-TAFII31-GCN5-L acetylase complex distinct from transcription factor IID. Martinez E, et al. J Biol Chem, 1998 Sep 11. PMID 9726987
    2. Identification of TATA-binding protein-free TAFII-containing complex subunits suggests a role in nucleosome acetylation and signal transduction. Brand M, et al. J Biol Chem, 1999 Jun 25. PMID 10373431
    3. Human STAGA complex is a chromatin-acetylating transcription coactivator that interacts with pre-mRNA splicing and DNA damage-binding factors in vivo. Martinez E, et al. Mol Cell Biol, 2001 Oct. PMID 11564863, Free PMC Article
    4. A TFTC/STAGA module mediates histone H2A and H2B deubiquitination, coactivates nuclear receptors, and counteracts heterochromatin silencing. Zhao Y, et al. Mol Cell, 2008 Jan 18. PMID 18206972
    5. ATAC-king the complexity of SAGA during evolution. Spedale G, et al. Genes Dev, 2012 Mar 15. PMID 22426530, Free PMC Article

    See all (6) 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 protein heterodimerization activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables transcription coactivator activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    involved_in biological_process ND
    No biological Data available
    more info
    		  
    involved_in positive regulation of DNA-templated transcription IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in regulation of transcription by RNA polymerase II ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    part_of SAGA complex ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of transcription factor TFTC complex ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    transcription initiation protein SPT3 homolog
    Names
    suppressor of Ty 3 homolog

    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_001427435.1 → NP_001414364.1  transcription initiation protein SPT3 homolog

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000009
      UniProtKB/TrEMBL
      A0A8I6A991, A6JJ07

    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_086027.1 Reference GRCr8

      Range
      23375889..23704229 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_008766906.4 → XP_008765128.2  transcription initiation protein SPT3 homolog isoform X1

      UniProtKB/TrEMBL
      A0A8I5YBB9, F1LY08

    2. XM_063267750.1 → XP_063123820.1  transcription initiation protein SPT3 homolog isoform X9

    3. XM_039084827.2 → XP_038940755.1  transcription initiation protein SPT3 homolog isoform X2

      UniProtKB/TrEMBL
      A6JJ08, F1LY08
      Related
      ENSRNOP00000088356.1
      Conserved Domains (1) summary
      pfam02269
      Location:24 → 116
      TFIID-18kDa; Transcription initiation factor IID, 18kD subunit

    4. XM_063267745.1 → XP_063123815.1  transcription initiation protein SPT3 homolog isoform X4

    5. XM_039084829.2 → XP_038940757.1  transcription initiation protein SPT3 homolog isoform X1

      UniProtKB/TrEMBL
      A0A8I5YBB9, F1LY08

    6. XM_063267748.1 → XP_063123818.1  transcription initiation protein SPT3 homolog isoform X8

    7. XM_063267749.1 → XP_063123819.1  transcription initiation protein SPT3 homolog isoform X9

    8. XM_063267742.1 → XP_063123812.1  transcription initiation protein SPT3 homolog isoform X2

      UniProtKB/TrEMBL
      A6JJ08

    9. XM_063267743.1 → XP_063123813.1  transcription initiation protein SPT3 homolog isoform X2

      UniProtKB/TrEMBL
      A6JJ08

    10. XM_039084830.2 → XP_038940758.1  transcription initiation protein SPT3 homolog isoform X1

      UniProtKB/TrEMBL
      A0A8I5YBB9, F1LY08
      Related
      ENSRNOP00000027293.8

    11. XM_039084831.2 → XP_038940759.1  transcription initiation protein SPT3 homolog isoform X1

      UniProtKB/TrEMBL
      A0A8I5YBB9, F1LY08
      Related
      ENSRNOP00000076482.1

    12. XM_063267751.1 → XP_063123821.1  transcription initiation protein SPT3 homolog isoform X10

    13. XM_039084834.2 → XP_038940762.2  transcription initiation protein SPT3 homolog isoform X5

    14. XM_039084838.2 → XP_038940766.1  transcription initiation protein SPT3 homolog isoform X11

      Conserved Domains (1) summary
      cl02176
      Location:175 → 194
      TAF11; TATA Binding Protein (TBP) Associated Factor 11 (TAF11) is one of several TAFs that bind TBP and is involved in forming Transcription Factor IID (TFIID) complex

    15. XM_063267752.1 → XP_063123822.1  transcription initiation protein SPT3 homolog isoform X12

    16. XM_063267746.1 → XP_063123816.1  transcription initiation protein SPT3 homolog isoform X6

      UniProtKB/TrEMBL
      A0A8I6AS14

    17. XM_063267744.1 → XP_063123814.1  transcription initiation protein SPT3 homolog isoform X3

    18. XM_063267747.1 → XP_063123817.1  transcription initiation protein SPT3 homolog isoform X7

    Nucleotide Protein Strain
    Heading Accession and Version

    Gene LinkOut

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