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    rtf1 RTF1 homolog, Paf1/RNA polymerase II complex component [ Danio rerio (zebrafish) ]

    Gene ID: 100000471, updated on 27-Mar-2024

    Summary

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    Official Symbol
    rtf1provided by ZNC
    Official Full Name
    RTF1 homolog, Paf1/RNA polymerase II complex componentprovided by ZNC
    Primary source
    ZFIN:ZDB-GENE-030131-6778
    See related
    Ensembl:ENSDARG00000008947 AllianceGenome:ZFIN:ZDB-GENE-030131-6778
    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
    fb33g03; wu:fa04h07; wu:fb33g03
    Summary
    Predicted to enable RNA polymerase II C-terminal domain phosphoserine binding activity. Acts upstream of or within several processes, including neural crest cell development; post-anal tail morphogenesis; and somitogenesis. Located in nucleus. Orthologous to human RTF1 (RTF1 homolog, Paf1/RNA polymerase II complex component). [provided by Alliance of Genome Resources, Apr 2022]
    Orthologs
    human mouse all
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    Genomic context

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    Location:
    chromosome: 13
    Exon count:
    18
    Annotation release Status Assembly Chr Location
    106 current GRCz11 (GCF_000002035.6) 13 NC_007124.7 (33229458..33246123, complement)
    105 previous assembly GRCz10 (GCF_000002035.5) 13 NC_007124.6 (33099008..33115673, complement)

    Chromosome 13 - NC_007124.7Genomic Context describing neighboring genes Neighboring gene thyroid hormone receptor interactor 11 Neighboring gene golgin A5 Neighboring gene NADH:ubiquinone oxidoreductase complex assembly factor 1 Neighboring gene nucleolar and spindle associated protein 1 Neighboring gene opa interacting protein 5

    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. Highly Efficient CRISPR-Cas9-Based Methods for Generating Deletion Mutations and F0 Embryos that Lack Gene Function in Zebrafish. Hoshijima K, et al. Dev Cell, 2019 Dec 2. PMID 31708433, Free PMC Article
    2. The PAF1 complex differentially regulates cardiomyocyte specification. Langenbacher AD, et al. Dev Biol, 2011 May 1. PMID 21338598, Free PMC Article
    3. Paf1 complex homologues are required for Notch-regulated transcription during somite segmentation. Akanuma T, et al. EMBO Rep, 2007 Sep. PMID 17721442, Free PMC Article
    4. The Paf1 complex and P-TEFb have reciprocal and antagonist roles in maintaining multipotent neural crest progenitors. Jurynec MJ, et al. Development, 2019 Dec 16. PMID 31784460, Free PMC Article
    5. TIF1gamma controls erythroid cell fate by regulating transcription elongation. Bai X, et al. Cell, 2010 Jul 9. PMID 20603019, Free PMC Article

    See all (10) citations in PubMed

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Clone Names

    • KIAA0252

    Gene Ontology Provided by ZFIN

    Function Evidence Code Pubs
    enables DNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables RNA polymerase II C-terminal domain phosphoserine binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within heart development IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within neural crest cell development IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    acts_upstream_of_or_within neural crest cell development IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within pigmentation IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within post-anal tail morphogenesis IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    acts_upstream_of_or_within somitogenesis IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    acts_upstream_of_or_within somitogenesis IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    part_of Cdc73/Paf1 complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nucleus IDA
    Inferred from Direct Assay
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    RNA polymerase-associated protein RTF1 homolog
    Names
    RNA polymerase-associated Rtf1
    Rtf1, Paf1/RNA polymerase II complex component, homolog

    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_001083577.1 → NP_001077046.1  RNA polymerase-associated protein RTF1 homolog

      See identical proteins and their annotated locations for NP_001077046.1

      Status: PROVISIONAL

      Source sequence(s)
      AB286669
      UniProtKB/TrEMBL
      A3KDM2
      Related
      ENSDARP00000110578.2, ENSDART00000130127.4
      Conserved Domains (2) summary
      COG5296
      Location:152 → 589
      COG5296; Transcription factor involved in TATA site selection and in elongation by RNA polymerase II [Transcription]
      pfam03126
      Location:325 → 423
      Plus-3; Plus-3 domain

    RefSeqs of Annotated Genomes: Danio rerio Annotation Release 106 details...Open this link in a new tab

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

    Reference GRCz11 Primary Assembly

    Genomic

    1. NC_007124.7 Reference GRCz11 Primary Assembly

      Range
      33229458..33246123 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein Strain
    Heading Accession and Version

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