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

Gene ID: 100000471, updated on 9-Dec-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, Dec 2024]
Orthologs
human mouse all
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Genomic context

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See rtf1 in Genome Data Viewer
Location:
chromosome: 13
Exon count:
18
Annotation release Status Assembly Chr Location
RS_2024_08 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 
located_in nucleus IEA
Inferred from Electronic Annotation
more info
  

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: 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_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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