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    si:dkey-219c3.2 si:dkey-219c3.2 [ Danio rerio (zebrafish) ]

    Gene ID: 564106, updated on 4-Jan-2025

    Summary

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    Official Symbol
    si:dkey-219c3.2provided by ZNC
    Official Full Name
    si:dkey-219c3.2provided by ZNC
    Primary source
    ZFIN:ZDB-GENE-090313-238
    See related
    Ensembl:ENSDARG00000075805 AllianceGenome:ZFIN:ZDB-GENE-090313-238
    Gene type
    protein coding
    RefSeq status
    MODEL
    Organism
    Danio rerio
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
    Summary
    Predicted to enable DNA binding activity. Predicted to contribute to RNA polymerase II general transcription initiation factor activity. Predicted to be involved in transcription initiation at RNA polymerase II promoter. Predicted to act upstream of or within DNA-templated transcription initiation. Predicted to be located in nucleus. Predicted to be part of transcription factor TFIID complex. [provided by Alliance of Genome Resources, Jan 2025]
    Orthologs
    all
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    Genomic context

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    See si:dkey-219c3.2 in Genome Data Viewer
    Location:
    chromosome: 25
    Exon count:
    14
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 25 NC_007136.7 (20272202..20356885)
    105 previous assembly GRCz10 (GCF_000002035.5) 25 NC_007136.6 (20174409..20259231)

    Chromosome 25 - NC_007136.7Genomic Context describing neighboring genes Neighboring gene dynamin 1-like Neighboring gene DnaJ heat shock protein family (Hsp40) member B9a Neighboring gene si:ch211-269c21.2 Neighboring gene potassium channel tetramerization domain containing 15a

    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. RFX transcription factors are essential for hearing in mice. Elkon R, et al. Nat Commun, 2015 Oct 15. PMID 26469318, Free PMC Article
    2. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article
    3. Gene evolution and gene expression after whole genome duplication in fish: the PhyloFish database. Pasquier J, et al. BMC Genomics, 2016 May 18. PMID 27189481, Free PMC Article

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by ZFIN

    Function Evidence Code Pubs
    enables DNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    contributes_to RNA polymerase II general transcription initiation factor activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables protein heterodimerization activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within DNA-templated transcription IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within DNA-templated transcription initiation IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in transcription initiation at RNA polymerase II promoter IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		  
    part_of transcription factor TFIID complex IBA
    Inferred from Biological aspect of Ancestor
    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 4

    NCBI Reference Sequences (RefSeq)

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    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_007136.7 Reference GRCz11 Primary Assembly

      Range
      20272202..20356885
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_005163068.5 → XP_005163125.2  transcription initiation factor TFIID subunit 4 isoform X1

      UniProtKB/TrEMBL
      A0A8M2BA41, E7FFQ2
      Related
      ENSDARP00000100701.3, ENSDART00000109605.4

    2. XM_017354184.3 → XP_017209673.2  transcription initiation factor TFIID subunit 4 isoform X2

      UniProtKB/TrEMBL
      A0A8M6Z4F3
    Nucleotide Protein
    Heading Accession and Version

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