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    Taf15 TATA-box binding protein associated factor 15 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 287571, updated on 30-Mar-2024

    Summary

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    Symbol
    Taf15provided by RGD
    Full Name
    TATA-box binding protein associated factor 15provided by RGD
    Primary source
    RGD:1309595
    See related
    Ensembl:ENSRNOG00000058393 AllianceGenome:RGD:1309595
    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 mRNA 3'-UTR binding activity and transcription coregulator activity. Predicted to be involved in regulation of transcription, DNA-templated. Predicted to act upstream of or within RNA splicing and mRNA stabilization. Predicted to be located in cytoplasm and nucleoplasm. Predicted to be active in nucleus. Human ortholog(s) of this gene implicated in chondrosarcoma and extraskeletal myxoid chondrosarcoma. Orthologous to human TAF15 (TATA-box binding protein associated factor 15). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in Thymus (RPKM 140.1), Spleen (RPKM 107.2) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    Location:
    10q26
    Exon count:
    17
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 10 NC_086028.1 (68770408..68802458)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 10 NC_051345.1 (68272921..68304951)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 10 NC_005109.4 (70689863..70721892)

    Chromosome 10 - NC_086028.1Genomic Context describing neighboring genes Neighboring gene similar to human chromosome 17 open reading frame 50 Neighboring gene uncharacterized LOC120095158 Neighboring gene matrix metallopeptidase 28 Neighboring gene HEAT repeat containing 9 Neighboring gene C-C motif chemokine ligand 5

    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. Fusion of the RBP56 and CHN genes in extraskeletal myxoid chondrosarcomas with translocation t(9;17)(q22;q11). Panagopoulos I, et al. Oncogene, 1999 Dec 9. PMID 10602519
    2. PRMT1 mediated methylation of TAF15 is required for its positive gene regulatory function. Jobert L, et al. Exp Cell Res, 2009 Apr 15. PMID 19124016
    3. Distinct and shared functions of ALS-associated proteins TDP-43, FUS and TAF15 revealed by multisystem analyses. Kapeli K, et al. Nat Commun, 2016 Jul 5. PMID 27378374, Free PMC Article
    4. Structural bioinformatics of the general transcription factor TFIID. Malkowska M, et al. Biochimie, 2013 Apr. PMID 23146842
    5. JUNB-FBXO21-ERK axis promotes cartilage degeneration in osteoarthritis by inhibiting autophagy. Lin Z, et al. Aging Cell, 2021 Feb. PMID 33450132, Free PMC Article

    See all (11) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables RNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables RNA binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables mRNA 3'-UTR binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables transcription coregulator activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within RNA splicing ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in biological_process ND
    No biological Data available
    more info
    		  
    acts_upstream_of_or_within gene expression ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within mRNA stabilization ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulation of DNA-templated transcription IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    located_in cytoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    NOT located_in nucleolus ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    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
    TATA-binding protein-associated factor 2N
    Names
    TAF15 RNA polymerase II, TATA box binding protein (TBP)-associated factor
    TATA-binding protein-associated factor 2N-like

    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_001105824.2 → NP_001099294.2  TATA-binding protein-associated factor 2N

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000010
      UniProtKB/TrEMBL
      A0A0G2JZ19, A0A0G2K3Z7, B2RYG5
      Related
      ENSRNOP00000070879.2, ENSRNOT00000086987.2
      Conserved Domains (5) summary
      PTZ00110
      Location:4 → 69
      PTZ00110; helicase; Provisional
      sd00029
      Location:356 → 377
      zf-RanBP2; RanBP2-type Zn finger [structural motif]
      pfam00641
      Location:352 → 382
      zf-RanBP; Zn-finger in Ran binding protein and others
      cd12535
      Location:230 → 315
      RRM_FUS_TAF15; RNA recognition motif (RRM) found in vertebrate fused in Ewing's sarcoma protein (FUS), TATA-binding protein-associated factor 15 (TAF15) and similar proteins
      NF033849
      Location:21 → 158
      ser_rich_anae_1; serine-rich protein

    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_086028.1 Reference GRCr8

      Range
      68770408..68802458
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_063268690.1 → XP_063124760.1  TATA-binding protein-associated factor 2N isoform X1

    2. XM_039085549.2 → XP_038941477.1  TATA-binding protein-associated factor 2N isoform X2

      Conserved Domains (3) summary
      sd00029
      Location:192 → 213
      zf-RanBP2; RanBP2-type Zn finger [structural motif]
      pfam00641
      Location:188 → 218
      zf-RanBP; Zn-finger in Ran binding protein and others
      cd12535
      Location:66 → 151
      RRM_FUS_TAF15; RNA recognition motif (RRM) found in vertebrate fused in Ewing's sarcoma protein (FUS), TATA-binding protein-associated factor 15 (TAF15) and similar proteins
    Nucleotide Protein Strain
    Heading Accession and Version

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