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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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