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    Sfpq splicing factor proline/glutamine rich (polypyrimidine tract binding protein associated) [ Mus musculus (house mouse) ]

    Gene ID: 71514, updated on 12-Sep-2021

    Summary

    Official Symbol
    Sfpqprovided by MGI
    Official Full Name
    splicing factor proline/glutamine rich (polypyrimidine tract binding protein associated)provided by MGI
    Primary source
    MGI:MGI:1918764
    See related
    Ensembl:ENSMUSG00000028820
    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
    P; RE; PSF; REP1; Gm12940; AU021830; D4Ertd314; D4Ertd314e; 1110004P21Rik; 2810416M14Rik; 5730453G22Rik; 9030402K04Rik
    Expression
    Ubiquitous expression in CNS E11.5 (RPKM 54.6), CNS E14 (RPKM 39.2) and 27 other tissues See more
    Orthologs
    NEW
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    Genomic context

    See Sfpq in Genome Data Viewer
    Location:
    4 D2.2; 4 61.2 cM
    Exon count:
    15
    Annotation release Status Assembly Chr Location
    109 current GRCm39 (GCF_000001635.27) 4 NC_000070.7 (126914504..126944894)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 4 NC_000070.6 (127020716..127051101)
    Build 37.2 previous assembly MGSCv37 (GCF_000001635.18) 4 NC_000070.5 (126698545..126708480)

    Chromosome 4 - NC_000070.7Genomic Context describing neighboring genes Neighboring gene expressed sequence AU040320 Neighboring gene predicted gene, 25604 Neighboring gene zinc finger, MYM-type 4 Neighboring gene zinc finger, MYM domain containing 1 Neighboring gene zinc finger, MYM-type 6 Neighboring gene predicted gene, 25600 Neighboring gene transmembrane protein 35B

    Genomic regions, transcripts, and products

    Expression

    • 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

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Variation

    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Gene trapped (1) 
    • Targeted (3)  1 citation
    • Endonuclease-mediated (2) 

    Pathways from PubChem

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Homology

    Clone Names

    • MGC101933

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables DNA binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables RNA binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables chromatin binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables histone deacetylase binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables nucleic acid binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables protein homodimerization activity ISO
    Inferred from Sequence Orthology
    more info
     
    enables transcription cis-regulatory region binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    Process Evidence Code Pubs
    acts_upstream_of_or_within DNA repair IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within RNA splicing IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in activation of innate immune response ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in alternative mRNA splicing, via spliceosome IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    involved_in alternative mRNA splicing, via spliceosome ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within cellular response to DNA damage stimulus IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within chromosome organization IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in dendritic transport of messenger ribonucleoprotein complex IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in dendritic transport of messenger ribonucleoprotein complex IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in dendritic transport of messenger ribonucleoprotein complex IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    acts_upstream_of_or_within double-strand break repair via homologous recombination ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    involved_in histone H3 deacetylation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within immune system process IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within innate immune response IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within mRNA processing IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in negative regulation of circadian rhythm IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in negative regulation of transcription by RNA polymerase II ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in negative regulation of transcription, DNA-templated IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in negative regulation of transcription, DNA-templated IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in positive regulation of oxidative stress-induced intrinsic apoptotic signaling pathway ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within positive regulation of sister chromatid cohesion IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in positive regulation of transcription by RNA polymerase II ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within regulation of cell cycle IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in regulation of circadian rhythm IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in regulation of transcription, DNA-templated IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    acts_upstream_of_or_within rhythmic process IEA
    Inferred from Electronic Annotation
    more info
     
    Component Evidence Code Pubs
    part_of RNA polymerase II transcription regulator complex IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in chromatin ISO
    Inferred from Sequence Orthology
    more info
     
    located_in cytoplasm IEA
    Inferred from Electronic Annotation
    more info
     
    located_in nuclear matrix ISO
    Inferred from Sequence Orthology
    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
    PubMed 
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
     
    located_in paraspeckles IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in paraspeckles ISO
    Inferred from Sequence Orthology
    more info
     

    General protein information

    Preferred Names
    splicing factor, proline- and glutamine-rich
    Names
    DNA-binding p52/p100 complex, 100 kDa subunit
    PTB-associated splicing factor
    polypyrimidine tract-binding protein-associated-splicing factor

    NCBI Reference Sequences (RefSeq)

    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_023603.3NP_076092.1  splicing factor, proline- and glutamine-rich

      See identical proteins and their annotated locations for NP_076092.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) encodes the functional protein.
      Source sequence(s)
      AV137948, AW048189, BC089305, CJ067342
      Consensus CDS
      CCDS18662.1
      UniProtKB/Swiss-Prot
      Q8VIJ6
      Related
      ENSMUSP00000030623.8, ENSMUST00000030623.8
      Conserved Domains (3) summary
      cd12948
      Location:434530
      NOPS_PSF; NOPS domain, including C-terminal coiled-coil region, in polypyrimidine tract-binding protein (PTB)-associated-splicing factor (PSF) and similar proteins
      cd12333
      Location:364443
      RRM2_p54nrb_like; RNA recognition motif 2 in the p54nrb/PSF/PSP1 family
      cd12587
      Location:288358
      RRM1_PSF; RNA recognition motif 1 in vertebrate polypyrimidine tract-binding protein (PTB)-associated-splicing factor (PSF)

    RNA

    1. NR_045010.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) lacks an exon and includes three alternate 3' exons, compared to variant 1. This variant is represented as non-coding because the use of the 5'-most translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
      Source sequence(s)
      BC080848, BM246211, CA319647, CJ067342, CJ304628

    RefSeqs of Annotated Genomes: Mus musculus Annotation Release 109 details...Open this link in a new tab

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

    Reference GRCm39 C57BL/6J

    Genomic

    1. NC_000070.7 Reference GRCm39 C57BL/6J

      Range
      126914504..126944894
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_036164435.1XP_036020328.1  splicing factor, proline- and glutamine-rich isoform X2

      Conserved Domains (4) summary
      PRK12704
      Location:567675
      PRK12704; phosphodiesterase; Provisional
      cd12948
      Location:523619
      NOPS_PSF; NOPS domain, including C-terminal coiled-coil region, in polypyrimidine tract-binding protein (PTB)-associated-splicing factor (PSF) and similar proteins
      cd12587
      Location:377447
      RRM1_PSF; RNA recognition motif 1 (RRM1) found in vertebrate polypyrimidine tract-binding protein (PTB)-associated-splicing factor (PSF)
      cd12590
      Location:453532
      RRM2_PSF; RNA recognition motif 2 (RRM2) found in vertebrate polypyrimidine tract-binding protein (PTB)-associated-splicing factor (PSF)
    2. XM_036164430.1XP_036020323.1  splicing factor, proline- and glutamine-rich isoform X1

      Conserved Domains (4) summary
      PRK12704
      Location:567675
      PRK12704; phosphodiesterase; Provisional
      cd12948
      Location:523619
      NOPS_PSF; NOPS domain, including C-terminal coiled-coil region, in polypyrimidine tract-binding protein (PTB)-associated-splicing factor (PSF) and similar proteins
      cd12587
      Location:377447
      RRM1_PSF; RNA recognition motif 1 (RRM1) found in vertebrate polypyrimidine tract-binding protein (PTB)-associated-splicing factor (PSF)
      cd12590
      Location:453532
      RRM2_PSF; RNA recognition motif 2 (RRM2) found in vertebrate polypyrimidine tract-binding protein (PTB)-associated-splicing factor (PSF)
    3. XM_036164431.1XP_036020324.1  splicing factor, proline- and glutamine-rich isoform X1

      Conserved Domains (4) summary
      PRK12704
      Location:567675
      PRK12704; phosphodiesterase; Provisional
      cd12948
      Location:523619
      NOPS_PSF; NOPS domain, including C-terminal coiled-coil region, in polypyrimidine tract-binding protein (PTB)-associated-splicing factor (PSF) and similar proteins
      cd12587
      Location:377447
      RRM1_PSF; RNA recognition motif 1 (RRM1) found in vertebrate polypyrimidine tract-binding protein (PTB)-associated-splicing factor (PSF)
      cd12590
      Location:453532
      RRM2_PSF; RNA recognition motif 2 (RRM2) found in vertebrate polypyrimidine tract-binding protein (PTB)-associated-splicing factor (PSF)
    4. XM_036164433.1XP_036020326.1  splicing factor, proline- and glutamine-rich isoform X2

      Conserved Domains (4) summary
      PRK12704
      Location:567675
      PRK12704; phosphodiesterase; Provisional
      cd12948
      Location:523619
      NOPS_PSF; NOPS domain, including C-terminal coiled-coil region, in polypyrimidine tract-binding protein (PTB)-associated-splicing factor (PSF) and similar proteins
      cd12587
      Location:377447
      RRM1_PSF; RNA recognition motif 1 (RRM1) found in vertebrate polypyrimidine tract-binding protein (PTB)-associated-splicing factor (PSF)
      cd12590
      Location:453532
      RRM2_PSF; RNA recognition motif 2 (RRM2) found in vertebrate polypyrimidine tract-binding protein (PTB)-associated-splicing factor (PSF)
    5. XM_036164434.1XP_036020327.1  splicing factor, proline- and glutamine-rich isoform X2

      Conserved Domains (4) summary
      PRK12704
      Location:567675
      PRK12704; phosphodiesterase; Provisional
      cd12948
      Location:523619
      NOPS_PSF; NOPS domain, including C-terminal coiled-coil region, in polypyrimidine tract-binding protein (PTB)-associated-splicing factor (PSF) and similar proteins
      cd12587
      Location:377447
      RRM1_PSF; RNA recognition motif 1 (RRM1) found in vertebrate polypyrimidine tract-binding protein (PTB)-associated-splicing factor (PSF)
      cd12590
      Location:453532
      RRM2_PSF; RNA recognition motif 2 (RRM2) found in vertebrate polypyrimidine tract-binding protein (PTB)-associated-splicing factor (PSF)
    6. XM_036164429.1XP_036020322.1  splicing factor, proline- and glutamine-rich isoform X1

      Conserved Domains (4) summary
      PRK12704
      Location:567675
      PRK12704; phosphodiesterase; Provisional
      cd12948
      Location:523619
      NOPS_PSF; NOPS domain, including C-terminal coiled-coil region, in polypyrimidine tract-binding protein (PTB)-associated-splicing factor (PSF) and similar proteins
      cd12587
      Location:377447
      RRM1_PSF; RNA recognition motif 1 (RRM1) found in vertebrate polypyrimidine tract-binding protein (PTB)-associated-splicing factor (PSF)
      cd12590
      Location:453532
      RRM2_PSF; RNA recognition motif 2 (RRM2) found in vertebrate polypyrimidine tract-binding protein (PTB)-associated-splicing factor (PSF)
    7. XM_036164432.1XP_036020325.1  splicing factor, proline- and glutamine-rich isoform X1

      Conserved Domains (4) summary
      PRK12704
      Location:567675
      PRK12704; phosphodiesterase; Provisional
      cd12948
      Location:523619
      NOPS_PSF; NOPS domain, including C-terminal coiled-coil region, in polypyrimidine tract-binding protein (PTB)-associated-splicing factor (PSF) and similar proteins
      cd12587
      Location:377447
      RRM1_PSF; RNA recognition motif 1 (RRM1) found in vertebrate polypyrimidine tract-binding protein (PTB)-associated-splicing factor (PSF)
      cd12590
      Location:453532
      RRM2_PSF; RNA recognition motif 2 (RRM2) found in vertebrate polypyrimidine tract-binding protein (PTB)-associated-splicing factor (PSF)
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