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    Pspc1 paraspeckle component 1 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 305910, updated on 27-Nov-2024

    Summary

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    Official Symbol
    Pspc1provided by RGD
    Official Full Name
    paraspeckle component 1provided by RGD
    Primary source
    RGD:1310122
    See related
    EnsemblRapid:ENSRNOG00000020782 AllianceGenome:RGD:1310122
    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 RNA binding activity. Predicted to be involved in several processes, including activation of innate immune response; negative regulation of DNA-templated transcription; and regulation of circadian rhythm. Predicted to be located in fibrillar center and nucleoplasm. Predicted to be active in paraspeckles. Orthologous to human PSPC1 (paraspeckle component 1). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in Thymus (RPKM 212.3), Spleen (RPKM 189.4) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Pspc1 in Genome Data Viewer
    Location:
    15p12
    Exon count:
    12
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 15 NC_086033.1 (34941445..35027460, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 15 NC_051350.1 (30828617..30911315, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 15 NC_005114.4 (36946914..37030273, complement)

    Chromosome 15 - NC_086033.1Genomic Context describing neighboring genes Neighboring gene poly (ADP-ribose) polymerase family, member 4 Neighboring gene small nucleolar RNA SNORA5 Neighboring gene M-phase phosphoprotein 8 Neighboring gene zinc finger MYM-type containing 5 Neighboring gene ribosomal protein L39, pseudogene 4

    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. The lncRNA Malat1 is dispensable for mouse development but its transcription plays a cis-regulatory role in the adult. Zhang B, et al. Cell Rep, 2012 Jul 26. PMID 22840402, Free PMC Article
    2. Distinct roles of DBHS family members in the circadian transcriptional feedback loop. Kowalska E, et al. Mol Cell Biol, 2012 Nov. PMID 22966205, Free PMC Article
    3. An architectural role for a nuclear noncoding RNA: NEAT1 RNA is essential for the structure of paraspeckles. Clemson CM, et al. Mol Cell, 2009 Mar 27. PMID 19217333, Free PMC Article
    4. HEXIM1 and NEAT1 Long Non-coding RNA Form a Multi-subunit Complex that Regulates DNA-Mediated Innate Immune Response. Morchikh M, et al. Mol Cell, 2017 Aug 3. PMID 28712728
    5. Structural Analysis of Hippocampal Kinase Signal Transduction. McClatchy DB, et al. ACS Chem Neurosci, 2018 Dec 19. PMID 30053369, Free PMC Article

    See all (9) 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

    • MGC116378

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables RNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables RNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables RNA binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    involved_in activation of innate immune response ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in innate immune response IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in membraneless organelle assembly ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in negative regulation of DNA-templated transcription ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in negative regulation of DNA-templated transcription ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in regulation of DNA-templated transcription IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in regulation of circadian rhythm ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulation of circadian rhythm ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in rhythmic process IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    located_in cytoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in fibrillar center ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nuclear matrix IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nuclear speck IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nucleolus IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    is_active_in paraspeckles ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in paraspeckles ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    paraspeckle component 1
    Names
    paraspeckle 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_001025672.2 → NP_001020843.1  paraspeckle component 1

      See identical proteins and their annotated locations for NP_001020843.1

      Status: PROVISIONAL

      Source sequence(s)
      JAXUCZ010000015
      UniProtKB/Swiss-Prot
      Q4KLH4
      UniProtKB/TrEMBL
      A0A8I6ATP2, A6KHA3
      Related
      ENSRNOP00000028219.4, ENSRNOT00000028219.8
      Conserved Domains (3) summary
      cd12949
      Location:226 → 319
      NOPS_PSPC1; NOPS domain, including C-terminal coiled-coil region, in paraspeckle protein component 1 (PSPC1) and similar proteins
      cd12586
      Location:80 → 150
      RRM1_PSP1; RNA recognition motif 1 in vertebrate paraspeckle protein 1 (PSP1)
      cd12589
      Location:156 → 235
      RRM2_PSP1; RNA recognition motif 2 in vertebrate paraspeckle protein 1 (PSP1 or PSPC1)

    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_086033.1 Reference GRCr8

      Range
      34941445..35027460 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039093317.2 → XP_038949245.1  paraspeckle component 1 isoform X3

      Conserved Domains (2) summary
      cl06904
      Location:226 → 318
      eNOPS_SF; NOPS domain, including C-terminal helical extension region, in the p54nrb/PSF/PSP1 family
      cl17169
      Location:156 → 235
      RRM_SF; RNA recognition motif (RRM) superfamily

    2. XM_039093316.2 → XP_038949244.1  paraspeckle component 1 isoform X2

      UniProtKB/TrEMBL
      A0A0G2JYN7, A0A8I6ATP2
      Conserved Domains (3) summary
      cd12946
      Location:226 → 318
      NOPS_p54nrb_PSF_PSPC1; NOPS domain, including C-terminal coiled-coil region, in p54nrb/PSF/PSPC1 family proteins
      cd12586
      Location:80 → 150
      RRM1_PSP1; RNA recognition motif 1 (RRM1) found in vertebrate paraspeckle protein 1 (PSP1)
      cl17169
      Location:156 → 235
      RRM_SF; RNA recognition motif (RRM) superfamily

    3. XM_063274262.1 → XP_063130332.1  paraspeckle component 1 isoform X1

      UniProtKB/Swiss-Prot
      Q4KLH4
      UniProtKB/TrEMBL
      A6KHA3
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q4KLH4.1 GenPept UniProtKB/Swiss-Prot:Q4KLH4

    Gene LinkOut

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

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