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

    Gene ID: 68925, updated on 27-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
    • 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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    NEW Try the new Transcript table

    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

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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