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POLR2F RNA polymerase II subunit F [ Homo sapiens (human) ]

Gene ID: 5435, updated on 9-Dec-2018

Summary

Official Symbol
POLR2Fprovided by HGNC
Official Full Name
RNA polymerase II subunit Fprovided by HGNC
Primary source
HGNC:HGNC:9193
See related
Ensembl:ENSG00000100142 MIM:604414
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
RPB6; POLRF; RPC15; RPABC2; RPB14.4; HRBP14.4; RPABC14.4
Summary
This gene encodes the sixth largest subunit of RNA polymerase II, the polymerase responsible for synthesizing messenger RNA in eukaryotes. In yeast, this polymerase subunit, in combination with at least two other subunits, forms a structure that stabilizes the transcribing polymerase on the DNA template. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Jul 2014]
Expression
Ubiquitous expression in brain (RPKM 8.9), kidney (RPKM 5.0) and 25 other tissues See more
Orthologs

Genomic context

See POLR2F in Genome Data Viewer
Location:
22q13.1
Exon count:
9
Annotation release Status Assembly Chr Location
109 current GRCh38.p12 (GCF_000001405.38) 22 NC_000022.11 (37953663..38041915)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 22 NC_000022.10 (38349674..38368463)

Chromosome 22 - NC_000022.11Genomic Context describing neighboring genes Neighboring gene RNA, U6 small nuclear 900, pseudogene Neighboring gene MICAL like 1 Neighboring gene chromosome 22 open reading frame 23 Neighboring gene microRNA 6820 Neighboring gene VISTA enhancer hs564 Neighboring gene SRY-box 10 Neighboring gene VISTA enhancer hs486 Neighboring gene microRNA 4534 Neighboring gene VISTA enhancer hs491 Neighboring gene VISTA enhancer hs492 Neighboring gene protein interacting with PRKCA 1

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 FunctionsWhat's a GeneRIF?

HIV-1 interactions

Protein interactions

Protein Gene Interaction Pubs
Envelope surface glycoprotein gp120 env The transcription factors and kinases c-Jun, JNK, MEK, p38 MAPK, STAT-3, JAK-1, TFII D, TFII F, eIF-4E, and RNA polymerase II are induced by HIV-1 gp120 PubMed
Tat tat The interaction of Tip110 with HIV-1 Tat leads to a higher efficiency of elongation for RNAPII complexes formed on the LTR promoter PubMed
tat Expression of both Tip110 and Tat enhances phosphorylation of RNAPII at both serine 2 and serine 5, which account for Tip110 function in transcription activation PubMed
tat The interaction of Tip110 with HIV-1 Tat and the RNAPII C-terminal domain leads to the recruitment of increased CDK9/CycT1 to the transcription complex PubMed
tat HIV-1 Tat complexes with RNA polymerase II and cellular transcription factors as part of the HIV-1 transcription preinitiation and elongation complexes and stimulates RNA polymerase II processivity by inducing the phosphorylation of its C-terminal Domain PubMed
tat A small molecule compound C3 inhibits HIV-1 replication by suppressing HIV-1 Tat-mediated HIV-1 LTR-driven gene expression and phosphorylation of RNAPII through inhibition of Tat binding to CycT1 PubMed
tat JQ1, a small molecule inhibitor of Brd4, directly dissociates Brd4 from HIV-1 promoter and promotes subsequently HIV-1 Tat binding to HIV-1 promoter, resulting in increased phosphorylation of RNA polymerase II and viral transcription PubMed
tat HIV-1 Tat 41/44 peptide TAALS from the core domain of Tat inhibits Tat-mediated HIV-1 gene expression and replication by binding the Cdk2/Cyclin E complex and inhibiting the phosphorylation of serine 5 of RNAPII PubMed
Vpr vpr HIV-1 Vpr interacts with basal transcription complexes such as P-TEFb, TFIIH, TFIID (TBP) and TFIIB which activate RNA polymerase II gene transcription PubMed

Go to the HIV-1, Human Interaction Database

Pathways from BioSystems

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • FLJ22674, FLJ25861, FLJ36715, DKFZp547H2218

Gene Ontology Provided by GOA

Function Evidence Code Pubs
DNA binding IEA
Inferred from Electronic Annotation
more info
 
contributes_to DNA-directed 5'-3' RNA polymerase activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
contributes_to RNA polymerase I activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
contributes_to RNA polymerase II activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
contributes_to RNA polymerase III activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
Component Evidence Code Pubs
RNA polymerase I complex IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
RNA polymerase II, core complex IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
RNA polymerase II, core complex IDA
Inferred from Direct Assay
more info
PubMed 
RNA polymerase III complex IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
cytosol TAS
Traceable Author Statement
more info
 
fibrillar center IDA
Inferred from Direct Assay
more info
 
nucleoplasm TAS
Traceable Author Statement
more info
 
nucleus IDA
Inferred from Direct Assay
more info
PubMed 

General protein information

Preferred Names
DNA-directed RNA polymerases I, II, and III subunit RPABC2
Names
DNA-directed RNA polymerase II subunit F
DNA-directed RNA polymerases I, II, and III 14.4 kDa polypeptide
RNA Polymerase II subunit 14.4 kD
RNA polymerases I, II, and III subunit ABC2
polymerase (RNA) II (DNA directed) polypeptide F
polymerase (RNA) II subunit F
NP_001288058.1
NP_001288059.1
NP_001288060.1
NP_068809.1
XP_016884321.1

NCBI Reference Sequences (RefSeq)

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_001301129.1NP_001288058.1  DNA-directed RNA polymerases I, II, and III subunit RPABC2 isoform 2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) contains an alternate exon in the 5' region and initiates translation at an alternate start codon, compared to variant 1. The encoded isoform (2) has a distinct N-terminus and is shorter than isoform 1.
    Source sequence(s)
    AL031587, DA083933, DA372532
    Related
    ENSP00000475343.1, ENST00000492213.5
    Conserved Domains (1) summary
    PLN00152
    Location:21118
    PLN00152; DNA-directed RNA polymerase; Provisional
  2. NM_001301130.1NP_001288059.1  DNA-directed RNA polymerases I, II, and III subunit RPABC2 isoform 3

    See identical proteins and their annotated locations for NP_001288059.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) contains an alternate 3' exon structure, resulting in a different 3' coding region and 3' UTR, compared to variant 1. The encoded isoform (3) has a distinct C-terminus and is longer than isoform 1.
    Source sequence(s)
    AK026327, BP195499, DA372532
    Consensus CDS
    CCDS77673.1
    UniProtKB/TrEMBL
    B0QYL9
    Related
    ENSP00000385725.1, ENST00000407936.5
    Conserved Domains (1) summary
    cl14651
    Location:26100
    RNA_pol_Rpb6; RNA polymerase Rpb6
  3. NM_001301131.1NP_001288060.1  DNA-directed RNA polymerases I, II, and III subunit RPABC2 isoform 4

    See identical proteins and their annotated locations for NP_001288060.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (4) contains an alternate 3' exon structure, resulting in a different 3' coding region and 3' UTR, compared to variant 1. The encoded isoform (4) has a distinct C-terminus and is shorter than isoform 1.
    Source sequence(s)
    AK026327, DA372532, DN989996
    Related
    ENSP00000476187.1, ENST00000606538.5
    Conserved Domains (1) summary
    cl14651
    Location:26102
    RNA_pol_Rpb6; RNA polymerase Rpb6
  4. NM_001363825.1NP_001350754.1  DNA-directed RNA polymerases I, II, and III subunit RPABC2 isoform 5

    Status: REVIEWED

    Description
    Transcript Variant: This variant (6) differs in the 3' UTR and coding sequence compared to variant 1. The resulting isoform (5) has a shorter and distinct C-terminus compared to isoform 1.
    Source sequence(s)
    AL031587
    Consensus CDS
    CCDS87025.1
    Conserved Domains (1) summary
    cl14651
    Location:2697
    RNA_pol_Rpb6; RNA polymerase Rpb6
  5. NM_021974.5NP_068809.1  DNA-directed RNA polymerases I, II, and III subunit RPABC2 isoform 1

    See identical proteins and their annotated locations for NP_068809.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) encodes isoform 1.
    Source sequence(s)
    AL031587, DA372532
    Consensus CDS
    CCDS13963.1
    UniProtKB/Swiss-Prot
    P61218
    Related
    ENSP00000403852.2, ENST00000442738.6
    Conserved Domains (1) summary
    PLN00152
    Location:26127
    PLN00152; DNA-directed RNA polymerase; Provisional

RNA

  1. NR_125371.1 RNA Sequence

    Status: REVIEWED

    Description
    Transcript Variant: This variant (5) uses an alternate splice site at an internal exon, compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
    Source sequence(s)
    AL031587, DA203006, DA372532

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 109

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

Reference GRCh38.p12 Primary Assembly

Genomic

  1. NC_000022.11 Reference GRCh38.p12 Primary Assembly

    Range
    37953663..38041915
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_017028832.2XP_016884321.1  DNA-directed RNA polymerases I, II, and III subunit RPABC2 isoform X1

    UniProtKB/TrEMBL
    F8WC47
    Related
    ENSP00000406826.1, ENST00000443002.5
    Conserved Domains (1) summary
    cl14651
    Location:2697
    RNA_pol_Rpb6; RNA polymerase Rpb6
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