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Rpap1 RNA polymerase II associated protein 1 [ Mus musculus (house mouse) ]

Gene ID: 68925, updated on 2-Nov-2024

Summary

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Official Symbol
Rpap1provided by MGI
Official Full Name
RNA polymerase II associated protein 1provided by MGI
Primary source
MGI:MGI:1916175
See related
Ensembl:ENSMUSG00000034032 AllianceGenome:MGI:1916175
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
mKIAA1403; 1190005L06Rik; A730023M06Rik
Summary
Predicted to enable DNA binding activity and nucleotidyltransferase activity. Predicted to be involved in transcription by RNA polymerase II. Predicted to be located in nucleus. Predicted to be part of RNA polymerase complex. Is expressed in embryo. Orthologous to human RPAP1 (RNA polymerase II associated protein 1). [provided by Alliance of Genome Resources, Nov 2024]
Expression
Ubiquitous expression in ovary adult (RPKM 23.1), thymus adult (RPKM 18.8) and 28 other tissues See more
Orthologs
human all
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Genomic context

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See Rpap1 in Genome Data Viewer
Location:
2 E5; 2 59.97 cM
Exon count:
26
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 2 NC_000068.8 (119594440..119618018, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 2 NC_000068.7 (119763959..119787537, complement)

Chromosome 2 - NC_000068.8Genomic Context describing neighboring genes Neighboring gene inositol 1,4,5-trisphosphate 3-kinase A Neighboring gene leukocyte tyrosine kinase Neighboring gene STARR-seq mESC enhancer starr_05495 Neighboring gene predicted gene, 23814 Neighboring gene TYRO3 protein tyrosine kinase 3

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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

Bibliography

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Related articles in PubMed

  1. A CRISPR-based screen for Hedgehog signaling provides insights into ciliary function and ciliopathies. Breslow DK, et al. Nat Genet, 2018 Mar. PMID 29459677, Free PMC Article
  2. Microarray analysis of Foxa2 mutant mouse embryos reveals novel gene expression and inductive roles for the gastrula organizer and its derivatives. Tamplin OJ, et al. BMC Genomics, 2008 Oct 30. PMID 18973680, Free PMC Article
  3. Prediction of the coding sequences of mouse homologues of KIAA gene: II. The complete nucleotide sequences of 400 mouse KIAA-homologous cDNAs identified by screening of terminal sequences of cDNA clones randomly sampled from size-fractionated libraries. Okazaki N, et al. DNA Res, 2003 Feb 28. PMID 12693553
  4. ALS-linked loss of Cyclin-F function affects HSP90. Siebert A, et al. Life Sci Alliance, 2022 Sep 16. PMID 36114006, Free PMC Article
  5. Large-scale cDNA analysis reveals phased gene expression patterns during preimplantation mouse development. Ko MS, et al. Development, 2000 Apr. PMID 10725249

See all (21) citations in PubMed

GeneRIFs: Gene References Into Functions

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Clone Names

  • MGC144180, MGC144181

Gene Ontology Provided by MGI

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
  
part_of RNA polymerase complex ISO
Inferred from Sequence Orthology
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_001163701.1 → NP_001157173.1  RNA polymerase II-associated protein 1 isoform 2

    See identical proteins and their annotated locations for NP_001157173.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) differs in the 5' UTR compared to variant 1. Both variants 1 and 2 encode the same protein.
    Source sequence(s)
    AK167589, AL844896, BB843404, BC088899, D19398
    Consensus CDS
    CCDS16610.1
    UniProtKB/Swiss-Prot
    A2AQ24, Q148U0, Q148U1, Q3TJ48, Q3TLZ5, Q3TTA6, Q80TE0, Q80UT8, Q91VM0
    Related
    ENSMUSP00000037275.6, ENSMUST00000048493.12
    Conserved Domains (2) summary
    pfam08620
    Location:372 → 437
    RPAP1_C; RPAP1-like, C-terminal
    pfam08621
    Location:225 → 270
    RPAP1_N; RPAP1-like, N-terminal

  2. NM_177294.5 → NP_796268.3  RNA polymerase II-associated protein 1 isoform 1

    See identical proteins and their annotated locations for NP_796268.3

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longer transcript. Both variants 1 and 2 encode the same protein.
    Source sequence(s)
    AK167589, AL844896, BB843404, BC088899, D19398
    Consensus CDS
    CCDS16610.1
    UniProtKB/Swiss-Prot
    A2AQ24, Q148U0, Q148U1, Q3TJ48, Q3TLZ5, Q3TTA6, Q80TE0, Q80UT8, Q91VM0
    Related
    ENSMUSP00000097127.3, ENSMUST00000099529.9
    Conserved Domains (2) summary
    pfam08620
    Location:372 → 437
    RPAP1_C; RPAP1-like, C-terminal
    pfam08621
    Location:225 → 270
    RPAP1_N; RPAP1-like, N-terminal

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_000068.8 Reference GRCm39 C57BL/6J

    Range
    119594440..119618018 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006500121.3 → XP_006500184.1  RNA polymerase II-associated protein 1 isoform X1

    See identical proteins and their annotated locations for XP_006500184.1

    UniProtKB/Swiss-Prot
    A2AQ24, Q148U0, Q148U1, Q3TJ48, Q3TLZ5, Q3TTA6, Q80TE0, Q80UT8, Q91VM0
    Conserved Domains (2) summary
    pfam08620
    Location:372 → 437
    RPAP1_C; RPAP1-like, C-terminal
    pfam08621
    Location:225 → 270
    RPAP1_N; RPAP1-like, N-terminal

  2. XM_036162532.1 → XP_036018425.1  RNA polymerase II-associated protein 1 isoform X2

    Conserved Domains (2) summary
    pfam08620
    Location:135 → 200
    RPAP1_C; RPAP1-like, C-terminal
    pfam08621
    Location:1 → 33
    RPAP1_N; RPAP1-like, N-terminal

  3. XM_011239759.2 → XP_011238061.1  RNA polymerase II-associated protein 1 isoform X1

    See identical proteins and their annotated locations for XP_011238061.1

    UniProtKB/Swiss-Prot
    A2AQ24, Q148U0, Q148U1, Q3TJ48, Q3TLZ5, Q3TTA6, Q80TE0, Q80UT8, Q91VM0
    Related
    ENSMUSP00000106420.2, ENSMUST00000110793.8
    Conserved Domains (2) summary
    pfam08620
    Location:372 → 437
    RPAP1_C; RPAP1-like, C-terminal
    pfam08621
    Location:225 → 270
    RPAP1_N; RPAP1-like, N-terminal

RNA

  1. XR_001783174.1 RNA Sequence

    Related
    ENSMUST00000136419.8
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q80TE0.2 GenPept UniProtKB/Swiss-Prot:Q80TE0

Gene LinkOut

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