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Polr2d polymerase (RNA) II (DNA directed) polypeptide D [ Mus musculus (house mouse) ]

Gene ID: 69241, updated on 11-Apr-2024

Summary

Official Symbol
Polr2dprovided by MGI
Official Full Name
polymerase (RNA) II (DNA directed) polypeptide Dprovided by MGI
Primary source
MGI:MGI:1916491
See related
Ensembl:ENSMUSG00000024258 AllianceGenome:MGI:1916491
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as
RBP4; HSRBP4; 2310002G05Rik; 2610028L19Rik
Summary
Predicted to enable translation initiation factor binding activity. Predicted to be involved in RNA metabolic process; mRNA export from nucleus in response to heat stress; and positive regulation of translational initiation. Predicted to be located in cytosol and nuclear speck. Predicted to be part of RNA polymerase II, core complex. Predicted to be active in P-body. Is expressed in several structures, including alimentary system; brain; cranium; heart; and respiratory system. Orthologous to human POLR2D (RNA polymerase II subunit D). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in CNS E11.5 (RPKM 39.1), CNS E14 (RPKM 31.4) and 28 other tissues See more
Orthologs
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Genomic context

See Polr2d in Genome Data Viewer
Location:
18 B1; 18 17.85 cM
Exon count:
4
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 18 NC_000084.7 (31922178..31929762)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 18 NC_000084.6 (31789125..31796709)

Chromosome 18 - NC_000084.7Genomic Context describing neighboring genes Neighboring gene protein (peptidyl-prolyl cis/trans isomerase) NIMA-interacting, 4 (parvulin) pseudogene Neighboring gene STARR-positive B cell enhancer ABC_E8707 Neighboring gene AMME chromosomal region gene 1-like Neighboring gene STARR-positive B cell enhancer ABC_E3226 Neighboring gene predicted gene, 26533 Neighboring gene STARR-positive B cell enhancer mm9_chr18:31963552-31963852 Neighboring gene STARR-positive B cell enhancer ABC_E10983 Neighboring gene WD repeat domain 33 Neighboring gene glutathione S-transferase, mu 2 pseudogene Neighboring gene STARR-seq mESC enhancer starr_44149 Neighboring gene CapStarr-seq enhancer MGSCv37_chr18:32069964-32070147 Neighboring gene SFT2 domain containing 3

Genomic regions, transcripts, and products

Expression

  • Project title: Mouse ENCODE transcriptome data
  • Description: RNA profiling data sets generated by the Mouse ENCODE project.
  • BioProject: PRJNA66167
  • Publication: PMID 25409824
  • Analysis date: n/a

Variation

Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Targeted (1) 

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables nucleotide binding IEA
Inferred from Electronic Annotation
more info
 
enables translation initiation factor binding IBA
Inferred from Biological aspect of Ancestor
more info
 
Process Evidence Code Pubs
involved_in DNA-templated transcription initiation IEA
Inferred from Electronic Annotation
more info
 
involved_in cellular metabolic process IEA
Inferred from Electronic Annotation
more info
 
involved_in transcription by RNA polymerase II ISO
Inferred from Sequence Orthology
more info
 
involved_in transcription initiation at RNA polymerase II promoter IBA
Inferred from Biological aspect of Ancestor
more info
 
Component Evidence Code Pubs
part_of DNA-directed RNA polymerase complex IEA
Inferred from Electronic Annotation
more info
 
part_of RNA polymerase II, core complex IBA
Inferred from Biological aspect of Ancestor
more info
 
part_of RNA polymerase II, core complex ISO
Inferred from Sequence Orthology
more info
 
part_of RNA polymerase complex IEA
Inferred from Electronic Annotation
more info
 
located_in cytosol ISO
Inferred from Sequence Orthology
more info
 
located_in nuclear speck ISO
Inferred from Sequence Orthology
more info
 
located_in nucleoplasm ISO
Inferred from Sequence Orthology
more info
 
located_in nucleoplasm TAS
Traceable Author Statement
more info
 
located_in nucleus ISO
Inferred from Sequence Orthology
more info
 

General protein information

Preferred Names
DNA-directed RNA polymerase II subunit RPB4
Names
DNA-directed RNA polymerase II subunit D
RNA polymerase II subunit B4
NP_001344409.1
NP_081278.1

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_001357480.1NP_001344409.1  DNA-directed RNA polymerase II subunit RPB4 isoform 3

    Status: VALIDATED

    Source sequence(s)
    AC161511, BM946715, BP770158, BU696372
    Consensus CDS
    CCDS89209.1
    UniProtKB/TrEMBL
    A0A3Q4L2S8
    Related
    ENSMUSP00000157052.2, ENSMUST00000234146.2
    Conserved Domains (1) summary
    cl00638
    Location:24109
    RNA_pol_Rpb4; RNA polymerase Rpb4
  2. NM_027002.4NP_081278.1  DNA-directed RNA polymerase II subunit RPB4 isoform 1

    See identical proteins and their annotated locations for NP_081278.1

    Status: VALIDATED

    Source sequence(s)
    AC161511, AK011600, BP770158, BU696372
    Consensus CDS
    CCDS29111.1
    UniProtKB/Swiss-Prot
    Q6ZWW0, Q78KE6, Q9D7M8
    Related
    ENSMUSP00000025106.4, ENSMUST00000025106.5
    Conserved Domains (1) summary
    smart00657
    Location:24141
    RPOL4c; DNA-directed RNA-polymerase II subunit

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000084.7 Reference GRCm39 C57BL/6J

    Range
    31922178..31929762
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)