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

    Gene ID: 311338, updated on 5-Mar-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
    Ensembl:ENSRNOG00000005483 AllianceGenome:RGD:1590891
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    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
    • 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_001033999.2 → NP_001029171.1  RNA polymerase II-associated protein 1

      See identical proteins and their annotated locations for NP_001029171.1

      Status: PROVISIONAL

      Source sequence(s)
      BC101894, CB328668, CR475672
      UniProtKB/Swiss-Prot
      Q3T1I9
      UniProtKB/TrEMBL
      A0A8I6GL25
      Related
      ENSRNOP00000007299.3, ENSRNOT00000007299.7
      Conserved Domains (2) summary
      pfam08620
      Location:364 → 429
      RPAP1_C; RPAP1-like, C-terminal
      pfam08621
      Location:226 → 270
      RPAP1_N; RPAP1-like, N-terminal

    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

      See identical proteins and their annotated locations for XP_006234833.1

      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

    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

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

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