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Aliases for RTF1 Gene

Aliases for RTF1 Gene

  • RTF1 Homolog, Paf1/RNA Polymerase II Complex Component 2 3 5
  • KIAA0252 2 3 4
  • Rtf1, Paf1/RNA Polymerase II Complex Component, Homolog (S. Cerevisiae) 2
  • Rtf1, Paf1/RNA Polymerase II Complex Component, Homolog 3
  • Ortholog Of Mouse Gene Trap Locus 7 3
  • GTL7 3

External Ids for RTF1 Gene

Previous HGNC Symbols for RTF1 Gene

  • KIAA0252

Previous GeneCards Identifiers for RTF1 Gene

  • GC15P039497
  • GC15P041709
  • GC15P018557

Summaries for RTF1 Gene

Entrez Gene Summary for RTF1 Gene

  • 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]

GeneCards Summary for RTF1 Gene

RTF1 (RTF1 Homolog, Paf1/RNA Polymerase II Complex Component) is a Protein Coding gene. GO annotations related to this gene include poly(A) RNA binding and single-stranded DNA binding.

UniProtKB/Swiss-Prot for RTF1 Gene

  • Component of the PAF1 complex (PAF1C) which has multiple functions during transcription by RNA polymerase II and is implicated in regulation of development and maintenance of embryonic stem cell pluripotency. PAF1C associates with RNA polymerase II through interaction with POLR2A CTD non-phosphorylated and Ser-2- and Ser-5-phosphorylated forms and is involved in transcriptional elongation, acting both indepentently and synergistically with TCEA1 and in cooperation with the DSIF complex and HTATSF1. PAF1C is required for transcription of Hox and Wnt target genes. PAF1C is involved in hematopoiesis and stimulates transcriptional activity of KMT2A/MLL1; it promotes leukemogenesis through association with KMT2A/MLL1-rearranged oncoproteins, such as KMT2A/MLL1-MLLT3/AF9 and KMT2A/MLL1-MLLT1/ENL. PAF1C is involved in histone modifications such as ubiquitination of histone H2B and methylation on histone H3 Lys-4 (H3K4me3). PAF1C recruits the RNF20/40 E3 ubiquitin-protein ligase complex and the E2 enzyme UBE2A or UBE2B to chromatin which mediate monoubiquitination of Lys-120 of histone H2B (H2BK120ub1); UB2A/B-mediated H2B ubiquitination is proposed to be coupled to transcription. PAF1C is involved in mRNA 3 end formation probably through association with cleavage and poly(A) factors. In case of infection by influenza A strain H3N2, PAF1C associates with viral NS1 protein, thereby regulating gene transcription. Binds single-stranded DNA. Required for maximal induction of heat-shock genes. Required for the trimethylation of histone H3 Lys-4 (H3K4me3) on genes involved in stem cell pluripotency; this function is synergistic with CXXC1 indicative for an involvement of a SET1 complex (By similarity).

Gene Wiki entry for RTF1 Gene

No data available for Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for RTF1 Gene

Genomics for RTF1 Gene

Regulatory Elements for RTF1 Gene

Genomic Location for RTF1 Gene

Chromosome:
15
Start:
41,408,408 bp from pter
End:
41,483,563 bp from pter
Size:
75,156 bases
Orientation:
Plus strand

Genomic View for RTF1 Gene

Genes around RTF1 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
RTF1 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for RTF1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for RTF1 Gene

Proteins for RTF1 Gene

  • Protein details for RTF1 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q92541-RTF1_HUMAN
    Recommended name:
    RNA polymerase-associated protein RTF1 homolog
    Protein Accession:
    Q92541
    Secondary Accessions:
    • Q96BX6

    Protein attributes for RTF1 Gene

    Size:
    710 amino acids
    Molecular mass:
    80313 Da
    Quaternary structure:
    • Component of the PAF1 complex, which consists of CDC73, PAF1, LEO1, CTR9, RTF1 and WDR61; the association of RTF1 appears to be less stable than that of other subunits. At least in HeLa cells a N-terminal shorter form of RTF1 is also found in the complex.
    SequenceCaution:
    • Sequence=AAH15052.1; Type=Erroneous initiation; Note=Translation N-terminally extended.; Evidence={ECO:0000305}; Sequence=BAA13382.2; Type=Erroneous initiation; Note=Translation N-terminally extended.; Evidence={ECO:0000305};

    Three dimensional structures from OCA and Proteopedia for RTF1 Gene

neXtProt entry for RTF1 Gene

Proteomics data for RTF1 Gene at MOPED

Post-translational modifications for RTF1 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for RTF1 Gene

ENSEMBL proteins:
REFSEQ proteins:

Antibody Products

  • Cell Signaling Technology (CST) Antibodies for RTF1 (RTF1)
  • Santa Cruz Biotechnology (SCBT) Antibodies for RTF1

No data available for DME Specific Peptides for RTF1 Gene

Domains & Families for RTF1 Gene

Gene Families for RTF1 Gene

Protein Domains for RTF1 Gene

InterPro:
ProtoNet:

Suggested Antigen Peptide Sequences for RTF1 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q92541

UniProtKB/Swiss-Prot:

RTF1_HUMAN :
  • The Plus3 domain mediates single-stranded DNA-binding.
Domain:
  • The Plus3 domain mediates single-stranded DNA-binding.
  • Contains 1 Plus3 domain.
genes like me logo Genes that share domains with RTF1: view

Function for RTF1 Gene

Molecular function for RTF1 Gene

UniProtKB/Swiss-Prot Function:
Component of the PAF1 complex (PAF1C) which has multiple functions during transcription by RNA polymerase II and is implicated in regulation of development and maintenance of embryonic stem cell pluripotency. PAF1C associates with RNA polymerase II through interaction with POLR2A CTD non-phosphorylated and Ser-2- and Ser-5-phosphorylated forms and is involved in transcriptional elongation, acting both indepentently and synergistically with TCEA1 and in cooperation with the DSIF complex and HTATSF1. PAF1C is required for transcription of Hox and Wnt target genes. PAF1C is involved in hematopoiesis and stimulates transcriptional activity of KMT2A/MLL1; it promotes leukemogenesis through association with KMT2A/MLL1-rearranged oncoproteins, such as KMT2A/MLL1-MLLT3/AF9 and KMT2A/MLL1-MLLT1/ENL. PAF1C is involved in histone modifications such as ubiquitination of histone H2B and methylation on histone H3 Lys-4 (H3K4me3). PAF1C recruits the RNF20/40 E3 ubiquitin-protein ligase complex and the E2 enzyme UBE2A or UBE2B to chromatin which mediate monoubiquitination of Lys-120 of histone H2B (H2BK120ub1); UB2A/B-mediated H2B ubiquitination is proposed to be coupled to transcription. PAF1C is involved in mRNA 3 end formation probably through association with cleavage and poly(A) factors. In case of infection by influenza A strain H3N2, PAF1C associates with viral NS1 protein, thereby regulating gene transcription. Binds single-stranded DNA. Required for maximal induction of heat-shock genes. Required for the trimethylation of histone H3 Lys-4 (H3K4me3) on genes involved in stem cell pluripotency; this function is synergistic with CXXC1 indicative for an involvement of a SET1 complex (By similarity).

Gene Ontology (GO) - Molecular Function for RTF1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003697 single-stranded DNA binding IDA 18184592
genes like me logo Genes that share ontologies with RTF1: view
genes like me logo Genes that share phenotypes with RTF1: view

Animal Models for RTF1 Gene

MGI Knock Outs for RTF1:
  • Rtf1 tm1a(KOMP)Wtsi

Animal Model Products

Inhibitory RNA Products

In Situ Assay Products

Flow Cytometry Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for RTF1 Gene

Localization for RTF1 Gene

Subcellular locations from UniProtKB/Swiss-Prot for RTF1 Gene

Nucleus, nucleoplasm.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for RTF1 Gene COMPARTMENTS Subcellular localization image for RTF1 gene
Compartment Confidence
nucleus 5
cytosol 2

No data available for Gene Ontology (GO) - Cellular Components for RTF1 Gene

Pathways & Interactions for RTF1 Gene

SuperPathways for RTF1 Gene

No Data Available

Gene Ontology (GO) - Biological Process for RTF1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0001711 endodermal cell fate commitment IEA,ISS --
GO:0001832 blastocyst growth IEA --
GO:0006368 transcription elongation from RNA polymerase II promoter IEA --
GO:0016570 histone modification IEA --
GO:0045944 positive regulation of transcription from RNA polymerase II promoter IDA 20178742
genes like me logo Genes that share ontologies with RTF1: view

No data available for Pathways by source and SIGNOR curated interactions for RTF1 Gene

Drugs & Compounds for RTF1 Gene

No Compound Related Data Available

Transcripts for RTF1 Gene

Unigene Clusters for RTF1 Gene

Rtf1, Paf1/RNA polymerase II complex component, homolog (S. cerevisiae):
Representative Sequences:

Inhibitory RNA Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for RTF1 Gene

No ASD Table

Relevant External Links for RTF1 Gene

GeneLoc Exon Structure for
RTF1
ECgene alternative splicing isoforms for
RTF1

Expression for RTF1 Gene

mRNA expression in normal human tissues for RTF1 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for RTF1 Gene

This gene is overexpressed in Lung (32.3) and Peripheral blood mononuclear cells (9.0).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MOPED, and MaxQB for RTF1 Gene



SOURCE GeneReport for Unigene cluster for RTF1 Gene Hs.511096

genes like me logo Genes that share expression patterns with RTF1: view

Protein tissue co-expression partners for RTF1 Gene

- Elite partner

Primer Products

In Situ Assay Products

No data available for mRNA differential expression in normal tissues and mRNA Expression by UniProt/SwissProt for RTF1 Gene

Orthologs for RTF1 Gene

This gene was present in the common ancestor of animals and fungi.

Orthologs for RTF1 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia RTF1 35
  • 99.95 (n)
  • 100 (a)
RTF1 36
  • 100 (a)
OneToOne
cow
(Bos Taurus)
Mammalia RTF1 36
  • 98 (a)
OneToOne
RTF1 35
  • 93.1 (n)
  • 98.45 (a)
dog
(Canis familiaris)
Mammalia RTF1 35
  • 94.79 (n)
  • 99.01 (a)
RTF1 36
  • 99 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Rtf1 36
  • 97 (a)
OneToOne
Rtf1 16
Rtf1 35
  • 91.5 (n)
  • 98.03 (a)
oppossum
(Monodelphis domestica)
Mammalia RTF1 36
  • 97 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia RTF1 36
  • 93 (a)
OneToOne
chicken
(Gallus gallus)
Aves RTF1 36
  • 93 (a)
OneToOne
RTF1 35
  • 82.08 (n)
  • 94.33 (a)
lizard
(Anolis carolinensis)
Reptilia RTF1 36
  • 93 (a)
OneToOne
African clawed frog
(Xenopus laevis)
Amphibia Xl.16706 35
tropical clawed frog
(Silurana tropicalis)
Amphibia rtf1 35
  • 77.32 (n)
  • 89.4 (a)
Str.16458 35
rainbow trout
(Oncorhynchus mykiss)
Actinopterygii Omy.2044 35
zebrafish
(Danio rerio)
Actinopterygii Dr.15115 35
rtf1 35
  • 73.65 (n)
  • 82.93 (a)
rtf1 36
  • 81 (a)
OneToOne
fruit fly
(Drosophila melanogaster)
Insecta CG12498 36
  • 26 (a)
OneToMany
CG31702 36
  • 27 (a)
OneToMany
CG31703 36
  • 27 (a)
OneToMany
Rtf1 36
  • 36 (a)
OneToMany
Rtf1 35
  • 50.71 (n)
  • 46.73 (a)
worm
(Caenorhabditis elegans)
Secernentea F25B3.6 36
  • 33 (a)
OneToOne
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes RTF1 36
  • 24 (a)
OneToOne
sea squirt
(Ciona savignyi)
Ascidiacea CSA.1372 36
  • 49 (a)
OneToOne
Species with no ortholog for RTF1:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rat (Rattus norvegicus)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for RTF1 Gene

ENSEMBL:
Gene Tree for RTF1 (if available)
TreeFam:
Gene Tree for RTF1 (if available)

Paralogs for RTF1 Gene

No data available for Paralogs for RTF1 Gene

Variants for RTF1 Gene

Sequence variations from dbSNP and Humsavar for RTF1 Gene

SNP ID Clin Chr 15 pos Sequence Context AA Info Type
rs316608 -- 41,478,305(+) ctgag(A/G)cagga intron-variant
rs316609 -- 41,451,630(+) TGTAC(A/T)TTACT intron-variant
rs316610 -- 41,460,654(-) TTCAC(A/G)TAAGG intron-variant
rs316611 -- 41,459,480(-) CCAAC(A/G)CAATC intron-variant
rs823716 -- 41,465,469(-) gagac(A/G)ggatt intron-variant

Structural Variations from Database of Genomic Variants (DGV) for RTF1 Gene

Variant ID Type Subtype PubMed ID
nsv524476 CNV Loss 19592680
esv2674168 CNV Deletion 23128226
nsv1505 CNV Insertion 18451855

Variation tolerance for RTF1 Gene

Residual Variation Intolerance Score: 18.2% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 0.88; 18.37% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for RTF1 Gene

HapMap Linkage Disequilibrium report
RTF1
Human Gene Mutation Database (HGMD)
RTF1

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for RTF1 Gene

Disorders for RTF1 Gene

Relevant External Links for RTF1

Genetic Association Database (GAD)
RTF1
Human Genome Epidemiology (HuGE) Navigator
RTF1
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
RTF1

No disorders were found for RTF1 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for RTF1 Gene

Publications for RTF1 Gene

  1. System-wide temporal characterization of the proteome and phosphoproteome of human embryonic stem cell differentiation. (PMID: 21406692) Rigbolt K.T. … Blagoev B. (Sci. Signal. 2011) 3 4 67
  2. Rtf1 is a multifunctional component of the Paf1 complex that regulates gene expression by directing cotranscriptional histone modification. (PMID: 17576814) Warner M.H. … Arndt K.M. (Mol. Cell. Biol. 2007) 2 3
  3. The parafibromin tumor suppressor protein is part of a human Paf1 complex. (PMID: 15632063) Rozenblatt-Rosen O. … Meyerson M. (Mol. Cell. Biol. 2005) 2 3
  4. Temporal proteomics of NGF-TrkA signaling identifies an inhibitory role for the E3 ligase Cbl-b in neuroblastoma cell differentiation. (PMID: 25921289) Emdal K.B. … Olsen J.V. (Sci Signal 2015) 3
  5. The BioPlex Network: A Systematic Exploration of the Human Interactome. (PMID: 26186194) Huttlin E.L. … Gygi S.P. (Cell 2015) 3

Products for RTF1 Gene

Sources for RTF1 Gene

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