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

Gene ID: 23168, updated on 6-May-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
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Genomic context

See RTF1 in Genome Data Viewer
Location:
15q15.1
Exon count:
18
Annotation release Status Assembly Chr Location
109.20210226 current GRCh38.p13 (GCF_000001405.39) 15 NC_000015.10 (41417104..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 
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)

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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.

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 109.20210226

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
    41417104..41483563
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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