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    Taf13 TATA-box binding protein associated factor 13 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 310784, updated on 9-Dec-2024

    Summary

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    Official Symbol
    Taf13provided by RGD
    Official Full Name
    TATA-box binding protein associated factor 13provided by RGD
    Primary source
    RGD:1305398
    See related
    EnsemblRapid:ENSRNOG00000020315 AllianceGenome:RGD:1305398
    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 DNA binding activity and TBP-class protein binding activity. Predicted to be involved in RNA polymerase II preinitiation complex assembly; mRNA transcription by RNA polymerase II; and positive regulation of transcription initiation by RNA polymerase II. Predicted to be located in nucleolus and nucleoplasm. Predicted to be part of transcription factor TFIID complex. Human ortholog(s) of this gene implicated in autosomal recessive intellectual developmental disorder 60. Orthologous to human TAF13 (TATA-box binding protein associated factor 13). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Brain (RPKM 136.6), Kidney (RPKM 98.1) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Taf13 in Genome Data Viewer
    Location:
    2q34
    Exon count:
    4
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 2 NC_086020.1 (198893332..198903994)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 2 NC_051337.1 (196205219..196215882)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 2 NC_005101.4 (211359623..211370285)

    Chromosome 2 - NC_086020.1Genomic Context describing neighboring genes Neighboring gene small Cajal body-specific RNA 2 Neighboring gene transmembrane protein 167B Neighboring gene WD repeat domain 47 Neighboring gene glyceraldehyde-3-phosphate dehydrogenase-like Neighboring gene chloride channel CLIC-like 1

    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. Cloning and characterization of hTAFII18, hTAFII20 and hTAFII28: three subunits of the human transcription factor TFIID. Mengus G, et al. EMBO J, 1995 Apr 3. PMID 7729427, Free PMC Article
    2. Structural bioinformatics of the general transcription factor TFIID. Malkowska M, et al. Biochimie, 2013 Apr. PMID 23146842
    3. Dominant and redundant functions of TFIID involved in the regulation of hepatic genes. Tatarakis A, et al. Mol Cell, 2008 Aug 22. PMID 18722179
    4. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article
    5. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

    GeneRIFs: Gene References Into Functions

    Pathways from PubChem

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    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables DNA binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables TBP-class protein binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables protein heterodimerization activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in RNA polymerase II preinitiation complex assembly ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in biological_process ND
    No biological Data available
    more info
    		  
    involved_in mRNA transcription by RNA polymerase II ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of transcription initiation by RNA polymerase II ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in transcription by RNA polymerase II IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    located_in nucleolus IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nucleolus 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 TFIID complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of transcription factor TFIID complex ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    transcription initiation factor TFIID subunit 13
    Names
    TAF13 RNA polymerase II, TATA box binding protein (TBP)-associated factor

    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_001303616.1 → NP_001290545.1  transcription initiation factor TFIID subunit 13

      See identical proteins and their annotated locations for NP_001290545.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longer transcript. It encodes the protein.
      Source sequence(s)
      AW144407, FM054549, FM135814, JAXUCZ010000002
      UniProtKB/TrEMBL
      A0A9K3Y8H1, B2RYQ7, F7F1P7
      Related
      ENSRNOP00000111092.1, ENSRNOT00000171011.1
      Conserved Domains (1) summary
      cd07978
      Location:29 → 118
      TAF13; The TATA Binding Protein (TBP) Associated Factor 13 (TAF13) is one of several TAFs that bind TBP and is involved in forming Transcription Factor IID (TFIID) complex

    RNA

    1. NR_130639.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) lacks an internal exon compared to variant 1. This variant is represented as non-coding because the predicted protein does not meet RefSeq quality criteria.
      Source sequence(s)
      AW144407, CB557548, JAXUCZ010000002
      Related
      ENSRNOT00000027530.7

    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_086020.1 Reference GRCr8

      Range
      198893332..198903994
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NM_001107716.1: Suppressed sequence

      Description
      NM_001107716.1: This RefSeq was permanently suppressed because currently there is insufficient support for the transcript and the protein.
    Nucleotide Protein Strain
    Heading Accession and Version

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