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    POLR2F RNA polymerase II, I and III subunit F [ Homo sapiens (human) ]

    Gene ID: 5435, updated on 9-Dec-2024

    Summary

    Official Symbol
    POLR2Fprovided by HGNC
    Official Full Name
    RNA polymerase II, I and III subunit Fprovided by HGNC
    Primary source
    HGNC:HGNC:9193
    See related
    Ensembl:ENSG00000100142 MIM:604414; AllianceGenome:HGNC:9193
    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
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    See POLR2F in Genome Data Viewer
    Location:
    22q13.1
    Exon count:
    9
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 22 NC_000022.11 (37953663..38041915)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 22 NC_060946.1 (38415270..38503533)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 22 NC_000022.10 (38349670..38437922)

    Chromosome 22 - NC_000022.11Genomic Context describing neighboring genes Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr22:38290604-38291248 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr22:38294770-38295536 Neighboring gene RNA, U6 small nuclear 900, pseudogene Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr22:38300995-38301810 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr22:38301811-38302626 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr22:38302627-38303442 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr22:38303443-38304256 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr22:38306246-38307039 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr22:38313076-38313576 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr22:38314373-38314874 Neighboring gene ReSE screen-validated silencer GRCh37_chr22:38313949-38314111 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr22:38314875-38315374 Neighboring gene MICAL like 1 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr22:38329039-38329841 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr22:38329842-38330643 Neighboring gene chromosome 22 open reading frame 23 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 13705 Neighboring gene H3K27ac hESC enhancer GRCh37_chr22:38360913-38361412 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr22:38363646-38364146 Neighboring gene Sharpr-MPRA regulatory region 10540 Neighboring gene OCT4-NANOG-H3K4me1 hESC enhancer GRCh37_chr22:38367753-38368266 Neighboring gene MPRA-validated peak4487 silencer Neighboring gene microRNA 6820 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr22:38378831-38379668 Neighboring gene VISTA enhancer hs564 Neighboring gene SRY-box transcription factor 10 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr22:38392633-38393194 Neighboring gene VISTA enhancer hs486 Neighboring gene microRNA 4534 Neighboring gene H3K27ac hESC enhancer GRCh37_chr22:38424434-38424934 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr22:38427029-38428228 Neighboring gene VISTA enhancer hs491 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 18989 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr22:38438297-38438796 Neighboring gene VISTA enhancer hs492 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr22:38446442-38446942 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr22:38446943-38447443 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 18990 Neighboring gene H3K27ac hESC enhancer GRCh37_chr22:38452863-38453488 Neighboring gene H3K27ac hESC enhancer GRCh37_chr22:38453489-38454112 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr22:38470967-38471468 Neighboring gene protein interacting with PRKCA 1 Neighboring gene uncharacterized LOC105373027 Neighboring gene solute carrier family 16 member 8

    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?

    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 PubChem

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Clone Names

    • FLJ22674, FLJ25861, FLJ36715, DKFZp547H2218

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables DNA binding IEA
    Inferred from Electronic Annotation
    more info
     
    contributes_to RNA polymerase I activity IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    contributes_to RNA polymerase II activity IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    contributes_to RNA polymerase III activity IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    Process Evidence Code Pubs
    involved_in tRNA transcription by RNA polymerase III IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in transcription by RNA polymerase I IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in transcription by RNA polymerase II IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in transcription by RNA polymerase II IDA
    Inferred from Direct Assay
    more info
    PubMed 
    Component Evidence Code Pubs
    part_of RNA polymerase I complex IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    part_of RNA polymerase I complex IDA
    Inferred from Direct Assay
    more info
    PubMed 
    part_of RNA polymerase II, core complex IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    part_of RNA polymerase II, core complex IDA
    Inferred from Direct Assay
    more info
    PubMed 
    part_of RNA polymerase III complex IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    part_of RNA polymerase III complex IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in cytosol TAS
    Traceable Author Statement
    more info
     
    located_in fibrillar center IDA
    Inferred from Direct Assay
    more info
     
    located_in nucleoplasm IDA
    Inferred from Direct Assay
    more info
     
    located_in nucleoplasm TAS
    Traceable Author Statement
    more info
     
    located_in 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 polymerase II subunit F
    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_001350754.1
    NP_068809.1

    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.

    mRNA and Protein(s)

    1. NM_001301129.2NP_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
      UniProtKB/TrEMBL
      U3KPY1
      Related
      ENSP00000475343.1, ENST00000492213.5
      Conserved Domains (1) summary
      PLN00152
      Location:21118
      PLN00152; DNA-directed RNA polymerase; Provisional
    2. NM_001301130.2NP_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
      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_001301131.2NP_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, DN989996
      UniProtKB/TrEMBL
      U3KQS8
      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
      UniProtKB/TrEMBL
      F8WC47, U3KQS8
      Related
      ENSP00000406826.1, ENST00000443002.5
      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
      P41584, P61218, Q6IAY3
      UniProtKB/TrEMBL
      B2R4H6
      Related
      ENSP00000403852.2, ENST00000442738.7
      Conserved Domains (1) summary
      PLN00152
      Location:26127
      PLN00152; DNA-directed RNA polymerase; Provisional

    RNA

    1. NR_125371.2 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

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

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

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000022.11 Reference GRCh38.p14 Primary Assembly

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

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060946.1 Alternate T2T-CHM13v2.0

      Range
      38415270..38503533
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)