Format

Send to:

Choose Destination
    • Showing Current items.

    RTF1 RTF1 homolog, Paf1/RNA polymerase II complex component [ Homo sapiens (human) ]

    Gene ID: 23168, updated on 6-Sep-2021

    Summary

    Official Symbol
    RTF1provided by HGNC
    Official Full Name
    RTF1 homolog, Paf1/RNA polymerase II complex componentprovided by HGNC
    Primary source
    HGNC:HGNC:28996
    See related
    Ensembl:ENSG00000137815 MIM:611633
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    GTL7; KIAA0252
    Summary
    This locus may represent a gene involved in regulation of transcription elongation and chromatin remodeling, based on studies of similar proteins in other organisms. The encoded protein may bind single-stranded DNA. [provided by RefSeq, Sep 2010]
    Expression
    Ubiquitous expression in thyroid (RPKM 16.0), testis (RPKM 15.7) and 25 other tissues See more
    Orthologs
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    See RTF1 in Genome Data Viewer
    Location:
    15q15.1
    Exon count:
    18
    Annotation release Status Assembly Chr Location
    109.20210514 current GRCh38.p13 (GCF_000001405.39) 15 NC_000015.10 (41417095..41483563)
    105.20201022 previous assembly GRCh37.p13 (GCF_000001405.25) 15 NC_000015.9 (41709302..41775761)

    Chromosome 15 - NC_000015.10Genomic Context describing neighboring genes Neighboring gene nucleolar and spindle associated protein 1 Neighboring gene NADH:ubiquinone oxidoreductase complex assembly factor 1 Neighboring gene RNA, U6 small nuclear 1169, pseudogene Neighboring gene uncharacterized LOC105370790 Neighboring gene Sharpr-MPRA regulatory region 6351 Neighboring gene inositol-trisphosphate 3-kinase A

    Genomic regions, transcripts, and products

    Expression

    • Project title: HPA RNA-seq normal tissues
    • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
    • BioProject: PRJEB4337
    • Publication: PMID 24309898
    • Analysis date: Wed Apr 4 07:08:55 2018

    Bibliography

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Phenotypes

    Associated conditions

    Description Tests
    Hundreds of variants clustered in genomic loci and biological pathways affect human height.
    GeneReviews: Not available

    HIV-1 interactions

    Replication interactions

    Interaction Pubs
    Knockdown of Rtf1, Paf1/RNA polymerase II complex component, homolog (S. cerevisiae) by siRNA enhances the early stages of HIV-1 replication in HeLa-CD4 cells infected with viral pseudotypes HIV89.6R and HIV8.2N PubMed

    Go to the HIV-1, Human Interaction Database

    Pathways from PubChem

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Homology

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables RNA binding HDA PubMed 
    enables RNA polymerase II C-terminal domain phosphoserine binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables single-stranded DNA binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    Process Evidence Code Pubs
    involved_in Wnt signaling pathway IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in blastocyst growth IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in endodermal cell fate commitment ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in histone H3-K4 trimethylation IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in negative regulation of transcription by RNA polymerase II ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in positive regulation of histone H3-K4 methylation IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in stem cell population maintenance IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in transcription elongation from RNA polymerase II promoter IDA
    Inferred from Direct Assay
    more info
    PubMed 
    Component Evidence Code Pubs
    part_of Cdc73/Paf1 complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    part_of Cdc73/Paf1 complex IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in nucleolus IEA
    Inferred from Electronic Annotation
    more info
     
    located_in nucleoplasm TAS
    Traceable Author Statement
    more info
     

    General protein information

    Preferred Names
    RNA polymerase-associated protein RTF1 homolog
    Names
    Rtf1, Paf1/RNA polymerase II complex component, homolog
    ortholog of mouse gene trap locus 7

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    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.

    Genomic

    1. NG_027680.1 RefSeqGene

      Range
      5001..71460
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_015138.5NP_055953.3  RNA polymerase-associated protein RTF1 homolog

      See identical proteins and their annotated locations for NP_055953.3

      Status: REVIEWED

      Source sequence(s)
      AC087721
      Consensus CDS
      CCDS32200.2
      UniProtKB/Swiss-Prot
      Q92541
      Related
      ENSP00000374280.4, ENST00000389629.8
      Conserved Domains (2) summary
      COG5296
      Location:189623
      COG5296; Transcription factor involved in TATA site selection and in elongation by RNA polymerase II [Transcription]
      pfam03126
      Location:359459
      Plus-3; Plus-3 domain

    RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.20210514

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

    Reference GRCh38.p13 Primary Assembly

    Genomic

    1. NC_000015.10 Reference GRCh38.p13 Primary Assembly

      Range
      41417095..41483563
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Support Center