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    taf1 TAF1 RNA polymerase II, TATA box binding protein (TBP)-associated factor [ Danio rerio (zebrafish) ]

    Gene ID: 555452, updated on 9-Dec-2024

    Summary

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    Official Symbol
    taf1provided by ZNC
    Official Full Name
    TAF1 RNA polymerase II, TATA box binding protein (TBP)-associated factorprovided by ZNC
    Primary source
    ZFIN:ZDB-GENE-030131-5576
    See related
    Ensembl:ENSDARG00000035330 AllianceGenome:ZFIN:ZDB-GENE-030131-5576
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Danio rerio
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
    Also known as
    wu:fi04f03; wu:fy39f07
    Summary
    Predicted to enable RNA polymerase II general transcription initiation factor activity and TBP-class protein binding activity. Acts upstream of or within developmental growth and midbrain development. Predicted to be located in nucleus. Predicted to be part of transcription factor TFIID complex. Is expressed in head and heart. Human ortholog(s) of this gene implicated in X-linked dystonia-parkinsonism and syndromic X-linked intellectual disability. Orthologous to human TAF1 (TATA-box binding protein associated factor 1) and TAF1L (TATA-box binding protein associated factor 1 like). [provided by Alliance of Genome Resources, Dec 2024]
    Orthologs
    all
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    Genomic context

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    See taf1 in Genome Data Viewer
    Location:
    chromosome: 5
    Exon count:
    41
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 5 NC_007116.7 (36551465..36592394, complement)
    105 previous assembly GRCz10 (GCF_000002035.5) 5 NC_007116.6 (35951310..35992241, complement)

    Chromosome 5 - NC_007116.7Genomic Context describing neighboring genes Neighboring gene immunoglobulin (CD79A) binding protein 1 Neighboring gene zgc:158432 Neighboring gene ras homolog gene family, member Gc Neighboring gene mitochondrial calcium uptake 2

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
    • Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
    • BioProject: PRJEB1986
    • Analysis date: Fri Dec 8 19:48:10 2017

    Bibliography

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    Related articles in PubMed

    1. TAF1 is needed for the proliferation and maturation of thyroid follicle cells via Notch signaling. Zhang C, et al. Am J Physiol Endocrinol Metab, 2024 Jun 1. PMID 38656129
    2. TAF1, associated with intellectual disability in humans, is essential for embryogenesis and regulates neurodevelopmental processes in zebrafish. Gudmundsson S, et al. Sci Rep, 2019 Jul 24. PMID 31341187, Free PMC Article
    3. TAF1 Variants Are Associated with Dysmorphic Features, Intellectual Disability, and Neurological Manifestations. O'Rawe JA, et al. Am J Hum Genet, 2015 Dec 3. PMID 26637982, Free PMC Article
    4. Quantitative mass spectrometry of TATA binding protein-containing complexes and subunit phosphorylations during the cell cycle. Pijnappel WP, et al. Proteome Sci, 2009 Dec 24. PMID 20034391, Free PMC Article
    5. ZNHIT3 is defective in PEHO syndrome, a severe encephalopathy with cerebellar granule neuron loss. Anttonen AK, et al. Brain, 2017 May 1. PMID 28335020

    See all (15) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. TAF1 is needed for the proliferation and maturation of thyroid follicle cells via Notch signaling.
      Title: TAF1 is needed for the proliferation and maturation of thyroid follicle cells via Notch signaling.
    2. Deletion of taf1 and taf5 in zebrafish capitulate cardiac and craniofacial abnormalities associated with TAFopathies through perturbations in metabolism.
      Title: Deletion of taf1 and taf5 in zebrafish capitulate cardiac and craniofacial abnormalities associated with TAFopathies through perturbations in metabolism.
    3. TAF1, associated with intellectual disability in humans, is essential for embryogenesis and regulates neurodevelopmental processes in zebrafish.
      Title: TAF1, associated with intellectual disability in humans, is essential for embryogenesis and regulates neurodevelopmental processes in zebrafish.
    Submit: New GeneRIF Correction

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by ZFIN

    Function Evidence Code Pubs
    enables DNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables RNA polymerase II general transcription initiation factor activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables TBP-class protein binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables histone acetyltransferase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables protein serine/threonine kinase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within DNA-templated transcription initiation IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within developmental growth IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within midbrain development IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within transcription by RNA polymerase II IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		  
    part_of transcription factor TFIID complex IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    transcription initiation factor TFIID subunit 1
    NP_001038250.1
    XP_005165373.1
    XP_021331844.1
    XP_021331845.1
    XP_021331846.1

    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_001044785.1 → NP_001038250.1  transcription initiation factor TFIID subunit 1

      Status: PROVISIONAL

      Source sequence(s)
      BX005407
      UniProtKB/TrEMBL
      A0A8M1N9B2, Q1LYC2
      Related
      ENSDARP00000051195.3, ENSDART00000051196.4
      Conserved Domains (4) summary
      cd05511
      Location:1573 → 1684
      Bromo_TFIID; Bromodomain, TFIID-like subfamily. Human TAFII250 (or TAF250) is the largest subunit of TFIID, a large multi-domain complex, which initiates the assembly of the transcription machinery. TAFII250 contains two bromodomains that specifically bind to ...
      pfam09247
      Location:13 → 64
      TBP-binding; TATA box-binding protein binding
      pfam12157
      Location:617 → 1079
      DUF3591; Protein of unknown function (DUF3591)
      pfam15288
      Location:1327 → 1362
      zf-CCHC_6; Zinc knuckle

    RefSeqs of Annotated Genomes: GCF_000002035.6-RS_2024_08

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCz11 Primary Assembly

    Genomic

    1. NC_007116.7 Reference GRCz11 Primary Assembly

      Range
      36551465..36592394 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_021476170.2 → XP_021331845.1  transcription initiation factor TFIID subunit 1 isoform X2

      UniProtKB/TrEMBL
      A0A8M9QDY7
      Conserved Domains (4) summary
      cd05511
      Location:1573 → 1684
      Bromo_TFIID; Bromodomain, TFIID-like subfamily. Human TAFII250 (or TAF250) is the largest subunit of TFIID, a large multi-domain complex, which initiates the assembly of the transcription machinery. TAFII250 contains two bromodomains that specifically bind to ...
      pfam09247
      Location:13 → 64
      TBP-binding; TATA box-binding protein binding
      pfam12157
      Location:617 → 1080
      DUF3591; Protein of unknown function (DUF3591)
      pfam15288
      Location:1327 → 1362
      zf-CCHC_6; Zinc knuckle

    2. XM_005165316.5 → XP_005165373.1  transcription initiation factor TFIID subunit 1 isoform X4

      UniProtKB/TrEMBL
      A0A8M2BCS6
      Conserved Domains (4) summary
      cd05511
      Location:1575 → 1686
      Bromo_TFIID; Bromodomain, TFIID-like subfamily. Human TAFII250 (or TAF250) is the largest subunit of TFIID, a large multi-domain complex, which initiates the assembly of the transcription machinery. TAFII250 contains two bromodomains that specifically bind to ...
      pfam09247
      Location:13 → 64
      TBP-binding; TATA box-binding protein binding
      pfam12157
      Location:617 → 1079
      DUF3591; Protein of unknown function (DUF3591)
      pfam15288
      Location:1327 → 1362
      zf-CCHC_6; Zinc knuckle

    3. XM_021476171.2 → XP_021331846.1  transcription initiation factor TFIID subunit 1 isoform X3

      UniProtKB/TrEMBL
      A0A8M9Q8M9
      Conserved Domains (4) summary
      cd05511
      Location:1575 → 1686
      Bromo_TFIID; Bromodomain, TFIID-like subfamily. Human TAFII250 (or TAF250) is the largest subunit of TFIID, a large multi-domain complex, which initiates the assembly of the transcription machinery. TAFII250 contains two bromodomains that specifically bind to ...
      pfam09247
      Location:13 → 64
      TBP-binding; TATA box-binding protein binding
      pfam12157
      Location:617 → 1080
      DUF3591; Protein of unknown function (DUF3591)
      pfam15288
      Location:1327 → 1362
      zf-CCHC_6; Zinc knuckle

    4. XM_021476169.2 → XP_021331844.1  transcription initiation factor TFIID subunit 1 isoform X1

      UniProtKB/TrEMBL
      A0A8M9Q3C1
      Conserved Domains (4) summary
      cd05511
      Location:1575 → 1686
      Bromo_TFIID; Bromodomain, TFIID-like subfamily. Human TAFII250 (or TAF250) is the largest subunit of TFIID, a large multi-domain complex, which initiates the assembly of the transcription machinery. TAFII250 contains two bromodomains that specifically bind to ...
      pfam09247
      Location:13 → 64
      TBP-binding; TATA box-binding protein binding
      pfam12157
      Location:617 → 1080
      DUF3591; Protein of unknown function (DUF3591)
      pfam15288
      Location:1327 → 1362
      zf-CCHC_6; Zinc knuckle
    Nucleotide Protein Strain
    Heading Accession and Version

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