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

Gene ID: 685697, updated on 27-Nov-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
EnsemblRapid: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 regulation of transcription by RNA polymerase II. 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, Nov 2024]
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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See Supt3h in Genome Data Viewer
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 IBA
Inferred from Biological aspect of Ancestor
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
  
involved_in transcription by RNA polymerase II IEA
Inferred from Electronic Annotation
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
    Related
    ENSRNOP00000088356.1, ENSRNOT00000114932.2

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
    ENSRNOP00000100017.1, ENSRNOT00000124302.1
    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
    Related
    ENSRNOP00000027293.8, ENSRNOT00000027293.9

  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

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

    UniProtKB/TrEMBL
    A0A8I5YBB9, F1LY08

  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
    Related
    ENSRNOP00000094629.1, ENSRNOT00000111359.2

  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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