Polr2A RNA polymerase II subunit A [Drosophila melanogaster (fruit fly)] - Gene

Summary

Official Symbol: Polr2Aprovided by FlyBase
Official Full Name: RNA polymerase II subunit Aprovided by FlyBase
Primary source: FLYBASE:FBgn0003277
Locus tag: Dmel_CG1554
See related: AllianceGenome:FB:FBgn0003277
Gene type: protein coding
RefSeq status: REVIEWED
Organism: Drosophila melanogaster
Lineage: Eukaryota; Metazoa; Ecdysozoa; Arthropoda; Hexapoda; Insecta; Pterygota; Neoptera; Endopterygota; Diptera; Brachycera; Muscomorpha; Ephydroidea; Drosophilidae; Drosophila; Sophophora
Also known as: 5; 8WG16; alphaPol IIo[ser2]; CG1554; CTD; DmCTD; Dmel\CG1554; dRpb1; dRPB1; H5; II; IIo; l(1)10Ca; l(1)DC912; l(1)DF912; l(1)G0040; l(1)L5; L5; POL; pol II; Pol II; Pol II CTD; Pol II Ser5p; Pol II Ser5P; Pol II0[ser2]; Pol II0[ser5]; Pol IIa; Pol IIo; Pol IIo[ser2]; Pol IIo[Ser2]; Pol IIo[ser5]; Pol II[ser2]; Pol-II; Pol-IIa; polII; PolII; PolIIa; PolIIo; PolIIo[ser2]; PolIIo[ser5]; Poll II; PolR2A; RNA pol II; RNA Pol II; RNA Pol II CTD; RNA Pol II ser2P; RNA pol IIo; RNA PolI 215; RNA polII; RNA PolII; RNA PolII CTD; RNA-Pol; RNA-PolII; RNAP; RNAP II; RNAP II LS; RNAPII; RNAPII Ser5P; RNAPII0; RNAPII[[0]][ser5]; RNAPoIIII; RNApol; RNApol II; RNApol2; RNApolII; Rpb1; RPB1; RpII; rpII1; RpII215; RPII215; Rpll215; RPO21; Ser5-P Pol II; Ubl
Summary: Enables DNA-directed 5'-3' RNA polymerase activity. Predicted to be involved in transcription by RNA polymerase II. Located in nucleus and polytene chromosome puff. Part of RNA polymerase II, core complex. Is expressed in organism. Orthologous to human POLR2A (RNA polymerase II subunit A). [provided by Alliance of Genome Resources, Apr 2022]
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Genomic context

Location:: 10C6-10C6; 1-35 cM

Exon count:: 4

Annotation release	Status	Assembly	Chr	Location
Release 6.54	current	Release 6 plus ISO1 MT (GCF_000001215.4)	X	NC_004354.4 (11562800..11570326, complement)
Release 5.57	previous assembly	Release 5 (GCF_000001215.2)	X	NC_004354.3 (11456833..11464359, complement)

Chromosome X - NC_004354.4 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

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Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

m(6)A RNA methylation regulates promoter- proximal pausing of RNA polymerase II.
Title: m(6)A RNA methylation regulates promoter- proximal pausing of RNA polymerase II.
The C-terminal domain (CTD) of RNA polymerase II (Pol II) is composed of repeats of the consensus YSPTSPS and is an essential binding scaffold for transcription-associated factors, supporting drosophila development with consensus heptads.
Title: The C-Terminal Domain of RNA Polymerase II Is a Multivalent Targeting Sequence that Supports Drosophila Development with Only Consensus Heptads.
Study measured the first wave of de novo transcription in living Drosophila embryos using dual-fluorescence detection of nascent transcripts containing 5' MS2 and 3' PP7 RNA stem loops. Pol II elongation rates of 2.4-3.0 kb/min were observed, approximately twice as fast as earlier estimates
Title: Rapid Rates of Pol II Elongation in the Drosophila Embryo.
Genetic and biochemical analyses reveal a functional interaction of MSL1 with CDK7, a subunit of the Cdk-activating kinase (CAK) complex of the general transcription factor TFIIH. Importantly, MSL1 depletion leads to decreased phosphorylation of Ser5 of RNA polymerase II.
Title: Functional interplay between MSL1 and CDK7 controls RNA polymerase II Ser5 phosphorylation.
Phosphorylation of the C-terminal domain of RNA polymerase II (CTD) plays an essential role in eukaryotic transcription by recruiting transcriptional regulatory factors to the active polymerase. This study shows that Tyrosine 1 is required for CTD phosphorylation by Erk2.
Title: Mapping the Phosphorylation Pattern of Drosophila melanogaster RNA Polymerase II Carboxyl-Terminal Domain Using Ultraviolet Photodissociation Mass Spectrometry.
Study provides additional evidence that Zeste protein plays no role in the activation of the white gene transcription; does not rule out that the white gene enhancer is able to recruit RNAPII and function as a weak promoter
Title: Functional organization of the white gene enhancer in Drosophila melanogaster.
This action of GAF on nucleosomes is at least partially independent of paused Pol II because intergenic GAF binding sites with little or no Pol II also show GAF-dependent nucleosome displacement.
Title: GAGA factor maintains nucleosome-free regions and has a role in RNA polymerase II recruitment to promoters.
Loss of dPNUTS function or specific disruption of its ability to bind PP1 results in hyperphosphorylation of the RNAPII CTD in whole animal extracts and on chromosomes
Title: PNUTS/PP1 regulates RNAPII-mediated gene expression and is necessary for developmental growth.
Determined are the kinetic and structural properties of Drosophila Ssu72-symplekin in complex with the C-terminal domain of RNA polymerase II peptide with consecutive phosphorylated Thr4 and Ser5. [Ssu72]
Title: novel modifications on C-terminal domain of RNA polymerase II can fine-tune the phosphatase activity of Ssu72.
A novel single-nucleotide mutation in the 3' UTR of the RNPII215 gene leads to a reduced number of nuclear divisions that is accompanied by premature transcription of early zygotic genes and cellularization.
Title: Number of nuclear divisions in the Drosophila blastoderm controlled by onset of zygotic transcription.

Submit: New GeneRIF Correction See all GeneRIFs (15)

Pathways from PubChem

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Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Homology

Orthologs from OrthoDB

Gene Ontology Provided by FlyBase

Function	Evidence Code	Pubs
enables DNA binding	IEA Inferred from Electronic Annotation more info
enables DNA-directed 5'-3' RNA polymerase activity	IDA Inferred from Direct Assay more info	PubMed
enables DNA-directed 5'-3' RNA polymerase activity	IEA Inferred from Electronic Annotation more info
contributes_to RNA polymerase II activity	IBA Inferred from Biological aspect of Ancestor more info
contributes_to RNA polymerase II activity	ISS Inferred from Sequence or Structural Similarity more info	PubMed

Process	Evidence Code	Pubs
involved_in DNA-templated transcription	IEA Inferred from Electronic Annotation more info
involved_in transcription by RNA polymerase II	IEA Inferred from Electronic Annotation more info
involved_in transcription by RNA polymerase II	ISS Inferred from Sequence or Structural Similarity more info	PubMed

Component	Evidence Code	Pubs
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 II, core complex	ISS Inferred from Sequence or Structural Similarity more info	PubMed
located_in nucleus	IDA Inferred from Direct Assay more info	PubMed
located_in polytene chromosome	IDA Inferred from Direct Assay more info	PubMed
located_in polytene chromosome puff	IDA Inferred from Direct Assay more info	PubMed

General protein information

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Preferred Names: RNA polymerase II subunit A

Names: CG1554-PA; Pol II CTD; Pol II large subunit; Pol II large subunit CTD; Polr2A-PA; RNA Pol II; RNA polymerase II; RNA polymerase II 215kD subunit; RNA polymerase II large subunit; RNA polymerase II largest subunit; RNA polymerase IIo; RNA polymeraseII-215 kd subunit; RNA-polymerase II; Ultrabithorax-like; polymerase II CTD

NP_511124.1

EC 2.7.7.6

NCBI Reference Sequences (RefSeq)

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Genome Annotation

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

Reference assembly

Genomic

NC_004354.4 Reference assembly

Range

11562800..11570326 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_078569.3 → NP_511124.1 RNA polymerase II subunit A [Drosophila melanogaster]

See identical proteins and their annotated locations for NP_511124.1

Status: REVIEWED

UniProtKB/Swiss-Prot

P04052, Q9VYX6

UniProtKB/TrEMBL

A9UNH9, D0Z769

Related

FBpp0073387

Conserved Domains (7) summary

cd02584
Location:1050 → 1468

RNAP_II_Rpb1_C; Largest subunit (Rpb1) of Eukaryotic RNA polymerase II (RNAP II), C-terminal domain

PRK08566
Location:14 → 887

PRK08566; DNA-directed RNA polymerase subunit A'; Validated

cd02733
Location:15 → 868

RNAP_II_RPB1_N; Largest subunit (Rpb1) of eukaryotic RNA polymerase II (RNAP II), N-terminal domain

pfam04992
Location:890 → 1071

RNA_pol_Rpb1_6; RNA polymerase Rpb1, domain 6

pfam04998
Location:822 → 1420

RNA_pol_Rpb1_5; RNA polymerase Rpb1, domain 5

pfam14944
Location:1602 → 1880

TCRP1; Tongue Cancer Chemotherapy Resistant Protein 1

cl23782
Location:1789 → 1864

RCR; Chitin synthesis regulation, resistance to Congo red