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Rpap1 RNA polymerase II associated protein 1 [ Rattus norvegicus (Norway rat) ]

Gene ID: 311338, updated on 17-Aug-2024

Summary

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Symbol
Rpap1provided by RGD
Full Name
RNA polymerase II associated protein 1provided by RGD
Primary source
RGD:1590891
See related
EnsemblRapid:ENSRNOG00000005483 AllianceGenome:RGD:1590891
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Rattus norvegicus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Summary
Predicted to enable DNA binding activity and DNA-directed 5'-3' RNA polymerase activity. Predicted to be involved in transcription by RNA polymerase II. Predicted to be located in nucleus. Orthologous to human RPAP1 (RNA polymerase II associated protein 1). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in Spleen (RPKM 45.3), Kidney (RPKM 42.8) and 9 other tissues See more
Orthologs
human mouse all
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Genomic context

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Location:
3q35
Exon count:
26
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 3 NC_086021.1 (127200450..127221985, complement)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 3 NC_051338.1 (106746642..106768182, complement)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 3 NC_005102.4 (111565646..111587184, complement)

Chromosome 3 - NC_086021.1Genomic Context describing neighboring genes Neighboring gene inositol-trisphosphate 3-kinase A Neighboring gene leukocyte receptor tyrosine kinase Neighboring gene TYRO3 protein tyrosine kinase Neighboring gene GABA type A receptor-associated protein, pseudogene 2

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
  • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
  • BioProject: PRJNA238328
  • Publication: PMID 24510058
  • Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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Related articles in PubMed

  1. Normalization and subtraction: two approaches to facilitate gene discovery. Bonaldo MF, et al. Genome Res, 1996 Sep. PMID 8889548
  2. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article
  3. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

GeneRIFs: Gene References Into Functions

General gene information

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Markers

Homology

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables DNA binding IEA
Inferred from Electronic Annotation
more info
  
enables nucleotidyltransferase activity IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
involved_in transcription by RNA polymerase II IEA
Inferred from Electronic Annotation
more info
  
Component Evidence Code Pubs
part_of DNA-directed RNA polymerase complex IEA
Inferred from Electronic Annotation
more info
  
located_in nucleus IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
RNA polymerase II-associated protein 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_001033999.3 → NP_001029171.1  RNA polymerase II-associated protein 1

    See identical proteins and their annotated locations for NP_001029171.1

    Status: VALIDATED

    Source sequence(s)
    JAXUCZ010000003
    UniProtKB/Swiss-Prot
    Q3T1I9
    UniProtKB/TrEMBL
    A0A8I6GL25
    Related
    ENSRNOP00000007299.3, ENSRNOT00000007299.8
    Conserved Domains (2) summary
    pfam08620
    Location:364 → 429
    RPAP1_C; RPAP1-like, C-terminal
    pfam08621
    Location:226 → 270
    RPAP1_N; RPAP1-like, N-terminal

  2. NM_001433380.1 → NP_001420309.1  RNA polymerase II-associated protein 1

    Status: VALIDATED

    Source sequence(s)
    JAXUCZ010000003

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

Reference GRCr8

Genomic

  1. NC_086021.1 Reference GRCr8

    Range
    127200450..127221985 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006234771.5 → XP_006234833.1  RNA polymerase II-associated protein 1 isoform X1

    UniProtKB/Swiss-Prot
    Q3T1I9
    UniProtKB/TrEMBL
    A0A8I6GL25
    Conserved Domains (2) summary
    pfam08620
    Location:364 → 429
    RPAP1_C; RPAP1-like, C-terminal
    pfam08621
    Location:226 → 270
    RPAP1_N; RPAP1-like, N-terminal

  2. XM_006234772.5 → XP_006234834.1  RNA polymerase II-associated protein 1 isoform X1

    See identical proteins and their annotated locations for XP_006234834.1

    UniProtKB/Swiss-Prot
    Q3T1I9
    UniProtKB/TrEMBL
    A0A8I6GL25
    Conserved Domains (2) summary
    pfam08620
    Location:364 → 429
    RPAP1_C; RPAP1-like, C-terminal
    pfam08621
    Location:226 → 270
    RPAP1_N; RPAP1-like, N-terminal

  3. XM_006234773.5 → XP_006234835.1  RNA polymerase II-associated protein 1 isoform X1

    See identical proteins and their annotated locations for XP_006234835.1

    UniProtKB/Swiss-Prot
    Q3T1I9
    UniProtKB/TrEMBL
    A0A8I6GL25
    Conserved Domains (2) summary
    pfam08620
    Location:364 → 429
    RPAP1_C; RPAP1-like, C-terminal
    pfam08621
    Location:226 → 270
    RPAP1_N; RPAP1-like, N-terminal

  4. XM_039104940.2 → XP_038960868.1  RNA polymerase II-associated protein 1 isoform X2

    Conserved Domains (1) summary
    pfam08620
    Location:37 → 102
    RPAP1_C; RPAP1-like, C-terminal
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q3T1I9.1 GenPept UniProtKB/Swiss-Prot:Q3T1I9

Gene LinkOut

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