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

Gene ID: 5435, updated on 27-Nov-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
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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)

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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.

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)