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    Sp140 Sp140 nuclear body protein [ Mus musculus (house mouse) ]

    Gene ID: 434484, updated on 27-Nov-2024

    Summary

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    Official Symbol
    Sp140provided by MGI
    Official Full Name
    Sp140 nuclear body proteinprovided by MGI
    Primary source
    MGI:MGI:3702467
    See related
    Ensembl:ENSMUSG00000070031 AllianceGenome:MGI:3702467
    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
    Summary
    Predicted to be located in fibrillar center and mitochondrion. Orthologous to human SP140 (SP140 nuclear body protein) and SP140L (SP140 nuclear body protein like). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Ubiquitous expression in spleen adult (RPKM 8.4), bladder adult (RPKM 4.8) and 26 other tissues See more
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    Genomic context

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    See Sp140 in Genome Data Viewer
    Location:
    1 C5; 1 43.6 cM
    Exon count:
    18
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 1 NC_000067.7 (85515212..85572761)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 1 NC_000067.6 (85587491..85645040)

    Chromosome 1 - NC_000067.7Genomic Context describing neighboring genes Neighboring gene predicted gene 7592 Neighboring gene predicted gene 7281 Neighboring gene STARR-seq mESC enhancer starr_01546 Neighboring gene STARR-seq mESC enhancer starr_01547 Neighboring gene predicted gene 2666 Neighboring gene STARR-seq mESC enhancer starr_01548 Neighboring gene predicted gene 2427 Neighboring gene STARR-positive B cell enhancer mm9_chr1:87441371-87441672 Neighboring gene STARR-seq mESC enhancer starr_01549 Neighboring gene Sp110 nuclear body protein Neighboring gene STARR-seq mESC enhancer starr_01550 Neighboring gene STARR-seq mESC enhancer starr_01551 Neighboring gene nuclear antigen Sp100 Neighboring gene CapStarr-seq enhancer MGSCv37_chr1:87584047-87584232 Neighboring gene STARR-positive B cell enhancer ABC_E1221 Neighboring gene STARR-positive B cell enhancer ABC_E323 Neighboring gene RIKEN cDNA A630001G21 gene Neighboring gene CapStarr-seq enhancer MGSCv37_chr1:87629249-87629446 Neighboring gene STARR-positive B cell enhancer ABC_E1551

    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. The role of Sp140 revealed in IgE and mast cell responses in Collaborative Cross mice. Matsushita K, et al. JCI Insight, 2021 Jun 22. PMID 34156030, Free PMC Article
    2. Immune chromatin reader SP140 regulates microbiota and risk for inflammatory bowel disease. Fraschilla I, et al. Cell Host Microbe, 2022 Oct 12. PMID 36130593, Free PMC Article
    3. Epigenetic reader SP140 loss of function drives Crohn's disease due to uncontrolled macrophage topoisomerases. Amatullah H, et al. Cell, 2022 Aug 18. PMID 35952671, Free PMC Article
    4. Role of the transcriptional regulator SP140 in resistance to bacterial infections via repression of type I interferons. Ji DX, et al. Elife, 2021 Jun 21. PMID 34151776, Free PMC Article
    5. Early cellular mechanisms of type I interferon-driven susceptibility to tuberculosis. Kotov DI, et al. Cell, 2023 Dec 7. PMID 38029747, Free PMC Article

    See all (10) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Epigenetic reader SP140 loss of function drives Crohn's disease due to uncontrolled macrophage topoisomerases.
      Title: Epigenetic reader SP140 loss of function drives Crohn's disease due to uncontrolled macrophage topoisomerases.
    2. The role of Sp140 revealed in IgE and mast cell responses in Collaborative Cross mice.
      Title: The role of Sp140 revealed in IgE and mast cell responses in Collaborative Cross mice.
    Submit: New GeneRIF Correction

    Variation

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    Alleles

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

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables RNA polymerase II cis-regulatory region sequence-specific DNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Process Evidence Code Pubs
    involved_in regulation of transcription by RNA polymerase II IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    located_in fibrillar center ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in mitochondrion ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    SP140 nuclear body protein family member

    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_001013817.3 → NP_001013839.1  SP140 nuclear body protein family member isoform 1

      See identical proteins and their annotated locations for NP_001013839.1

      Status: VALIDATED

      Source sequence(s)
      AC147806
      Consensus CDS
      CCDS35638.1
      UniProtKB/TrEMBL
      Q6NSQ5
      Related
      ENSMUSP00000079095.5, ENSMUST00000080204.11
      Conserved Domains (4) summary
      cd15626
      Location:360 → 401
      PHD_SP110_140; PHD finger found in the Sp100/Sp140 family of nuclear body components
      pfam01342
      Location:255 → 328
      SAND; SAND domain
      pfam03172
      Location:25 → 119
      HSR; HSR domain
      cl02556
      Location:424 → 527
      Bromodomain; Bromodomains are found in many chromatin-associated proteins and in nuclear histone acetyltransferases. They interact specifically with acetylated lysine.

    2. NM_001421036.1 → NP_001407965.1  SP140 nuclear body protein family member isoform 2

      Status: VALIDATED

      Source sequence(s)
      AC147806

    3. NM_001421037.1 → NP_001407966.1  SP140 nuclear body protein family member isoform 3

      Status: VALIDATED

      Source sequence(s)
      AC147806

    4. NM_001421038.1 → NP_001407967.1  SP140 nuclear body protein family member isoform 4

      Status: VALIDATED

      Source sequence(s)
      AC147806

    5. NM_001421039.1 → NP_001407968.1  SP140 nuclear body protein family member isoform 5

      Status: VALIDATED

      Source sequence(s)
      AC147806

    6. NM_001421040.1 → NP_001407969.1  SP140 nuclear body protein family member isoform 6

      Status: VALIDATED

      Source sequence(s)
      AC147806

    7. NM_001421041.1 → NP_001407970.1  SP140 nuclear body protein family member isoform 7

      Status: VALIDATED

      Source sequence(s)
      AC147806

    RNA

    1. NR_185232.1 RNA Sequence

      Status: VALIDATED

      Source sequence(s)
      AC147806

    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_000067.7 Reference GRCm39 C57BL/6J

      Range
      85515212..85572761
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_030255396.1 → XP_030111256.1  SP140 nuclear body protein family member isoform X1

      UniProtKB/TrEMBL
      Q6NSQ5
      Conserved Domains (4) summary
      cd15626
      Location:360 → 401
      PHD_SP110_140; PHD finger found in the Sp100/Sp140 family of nuclear body components
      pfam01342
      Location:255 → 328
      SAND; SAND domain
      pfam03172
      Location:25 → 119
      HSR; HSR domain
      cl02556
      Location:424 → 527
      Bromodomain; Bromodomains are found in many chromatin-associated proteins and in nuclear histone acetyltransferases. They interact specifically with acetylated lysine.

    2. XM_017321620.3 → XP_017177109.2  SP140 nuclear body protein family member isoform X6

      Conserved Domains (3) summary
      cd15626
      Location:360 → 401
      PHD_SP110_140; PHD finger found in the Sp100/Sp140 family of nuclear body components
      pfam01342
      Location:253 → 328
      SAND; SAND domain
      pfam03172
      Location:25 → 119
      HSR; HSR domain

    RNA

    1. XR_001785136.3 RNA Sequence

    Nucleotide Protein Strain
    Heading Accession and Version

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