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    Sgf29 SAGA complex associated factor 29 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 293488, updated on 9-Dec-2024

    Summary

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    Official Symbol
    Sgf29provided by RGD
    Official Full Name
    SAGA complex associated factor 29provided by RGD
    Primary source
    RGD:1310609
    See related
    EnsemblRapid:ENSRNOG00000019245 AllianceGenome:RGD:1310609
    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
    Also known as
    Ccdc101; RGD1310609
    Summary
    Predicted to enable methylated histone binding activity. Predicted to be involved in several processes, including regulation of DNA repair; regulation of gene expression; and regulation of tubulin deacetylation. Predicted to be located in nucleus. Predicted to be part of ATAC complex and SAGA complex. Human ortholog(s) of this gene implicated in diabetic retinopathy. Orthologous to human SGF29 (SAGA complex associated factor 29). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Testes (RPKM 329.2), Adrenal (RPKM 110.3) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Sgf29 in Genome Data Viewer
    Location:
    1q36
    Exon count:
    12
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 1 NC_086019.1 (190668803..190702500)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 1 NC_051336.1 (181238458..181271931)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 1 NC_005100.4 (198066974..198100494)

    Chromosome 1 - NC_086019.1Genomic Context describing neighboring genes Neighboring gene nuclear protein 1, transcriptional regulator Neighboring gene uncharacterized LOC134483843 Neighboring gene developmental pluripotency associated 3 like 3 Neighboring gene sulfotransferase family 1A member 1 Neighboring gene SLX1 homolog B, structure-specific endonuclease subunit

    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. The Role of Electrostatic Interactions in Binding of Histone H3K4me2/3 to the Sgf29 Tandem Tudor Domain. Pieters BJ, et al. PLoS One, 2015. PMID 26421618, Free PMC Article
    2. A dual role for SAGA-associated factor 29 (SGF29) in ER stress survival by coordination of both histone H3 acetylation and histone H3 lysine-4 trimethylation. Schram AW, et al. PLoS One, 2013. PMID 23894581, Free PMC Article
    3. The male-specific factor Sry harbors an oncogenic function. Murakami S, et al. Oncogene, 2014 Jun 5. PMID 23893245
    4. Deregulated expression of a novel component of TFTC/STAGA histone acetyltransferase complexes, rat SGF29, in hepatocellular carcinoma: possible implication for the oncogenic potential of c-Myc. Kurabe N, et al. Oncogene, 2007 Aug 16. PMID 17334388
    5. Tudor: a versatile family of histone methylation 'readers'. Lu R, et al. Trends Biochem Sci, 2013 Nov. PMID 24035451, Free PMC Article

    See all (15) 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 methylated histone binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables methylated histone binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables methylated histone binding ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    enables methylation-dependent protein binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables methylation-dependent protein binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables methylation-dependent protein binding ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in negative regulation of transcription by RNA polymerase II ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulation of DNA repair IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in regulation of DNA repair ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulation of DNA-templated transcription ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulation of cell cycle IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in regulation of cell cycle ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulation of cell division IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in regulation of cell division ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulation of embryonic development IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in regulation of embryonic development ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulation of transcription by RNA polymerase II ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulation of tubulin deacetylation ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in response to endoplasmic reticulum stress ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in transcription initiation-coupled chromatin remodeling ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in transcription initiation-coupled chromatin remodeling ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    Component Evidence Code Pubs
    part_of ATAC complex IEA
    Inferred from Electronic Annotation
    more info
    		  
    part_of ATAC complex ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of ATAC complex ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    part_of SAGA complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of SAGA complex IEA
    Inferred from Electronic Annotation
    more info
    		  
    part_of SAGA-type complex ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of SAGA-type complex ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    SAGA-associated factor 29
    Names
    SAGA-associated factor 29 homolog
    coiled-coil domain containing 101
    coiled-coil domain-containing protein 101
    rSGF29

    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_001398753.1 → NP_001385682.1  SAGA-associated factor 29 isoform a

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000001
      UniProtKB/Swiss-Prot
      P0C606
      UniProtKB/TrEMBL
      A0A0G2K9M7
      Related
      ENSRNOP00000105175.1, ENSRNOT00000135316.1
      Conserved Domains (1) summary
      pfam07039
      Location:158 → 288
      DUF1325; SGF29 tudor-like domain

    2. NM_001398754.1 → NP_001385683.1  SAGA-associated factor 29 isoform a

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000001
      UniProtKB/Swiss-Prot
      P0C606
      UniProtKB/TrEMBL
      A0A0G2K9M7
      Conserved Domains (1) summary
      pfam07039
      Location:158 → 288
      DUF1325; SGF29 tudor-like domain

    3. NM_001398755.1 → NP_001385684.1  SAGA-associated factor 29 isoform b

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000001
      Related
      ENSRNOP00000110557.1, ENSRNOT00000151185.1

    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_086019.1 Reference GRCr8

      Range
      190668803..190702500
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_063286083.1 → XP_063142153.1  SAGA-associated factor 29 isoform X2

      UniProtKB/TrEMBL
      A6I9A2

    2. XM_063286079.1 → XP_063142149.1  SAGA-associated factor 29 isoform X1

      UniProtKB/Swiss-Prot
      P0C606
      UniProtKB/TrEMBL
      A0A0G2K9M7

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NM_001114502.1: Suppressed sequence

      Description
      NM_001114502.1: This RefSeq was removed because currently there is insufficient support for the transcript and the protein.
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    P0C606.1 GenPept UniProtKB/Swiss-Prot:P0C606

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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