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    Pdss1 prenyl (solanesyl) diphosphate synthase, subunit 1 [ Mus musculus (house mouse) ]

    Gene ID: 56075, updated on 28-Oct-2024

    Summary

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    Official Symbol
    Pdss1provided by MGI
    Official Full Name
    prenyl (solanesyl) diphosphate synthase, subunit 1provided by MGI
    Primary source
    MGI:MGI:1889278
    See related
    Ensembl:ENSMUSG00000026784 AllianceGenome:MGI:1889278
    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
    TPT; Tprt; TPT 1; mDLP1; mSPS1; 2610203G20Rik; 2700031G06Rik
    Summary
    Enables protein heterodimerization activity. Contributes to all-trans-nonaprenyl-diphosphate synthase (geranyl-diphosphate specific) activity. Involved in isoprenoid biosynthetic process and ubiquinone biosynthetic process. Located in mitochondrion. Part of heterotetrameric polyprenyl diphosphate synthase complex. Is expressed in heart and heart right ventricle. Human ortholog(s) of this gene implicated in primary coenzyme Q10 deficiency 2. Orthologous to human PDSS1 (decaprenyl diphosphate synthase subunit 1). [provided by Alliance of Genome Resources, Oct 2024]
    Expression
    Ubiquitous expression in CNS E18 (RPKM 4.2), CNS E14 (RPKM 4.1) and 28 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Pdss1 in Genome Data Viewer
    Location:
    2 A3; 2 15.17 cM
    Exon count:
    12
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 2 NC_000068.8 (22784393..22830273)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 2 NC_000068.7 (22894382..22940266)

    Chromosome 2 - NC_000068.8Genomic Context describing neighboring genes Neighboring gene STARR-seq mESC enhancer starr_03915 Neighboring gene NADH:ubiquinone oxidoreductase complex assembly factor 3 pseudogene Neighboring gene amyloid beta precursor protein binding family B member 1 interacting protein Neighboring gene STARR-positive B cell enhancer ABC_E4417 Neighboring gene STARR-seq mESC enhancer starr_03917 Neighboring gene CapStarr-seq enhancer MGSCv37_chr2:22661206-22661359 Neighboring gene STARR-positive B cell enhancer ABC_E7796 Neighboring gene STARR-seq mESC enhancer starr_03918 Neighboring gene STARR-seq mESC enhancer starr_03919 Neighboring gene STARR-seq mESC enhancer starr_03920 Neighboring gene STARR-seq mESC enhancer starr_03922 Neighboring gene predicted gene, 52503 Neighboring gene ribosomal protein L17 pseudogene Neighboring gene abl interactor 1 Neighboring gene STARR-seq mESC enhancer starr_03923 Neighboring gene STARR-positive B cell enhancer mm9_chr2:22895642-22895943 Neighboring gene STARR-positive B cell enhancer mm9_chr2:22896813-22897114 Neighboring gene predicted gene, 52502 Neighboring gene STARR-seq mESC enhancer starr_03925 Neighboring gene STARR-positive B cell enhancer ABC_E2030 Neighboring gene STARR-positive B cell enhancer ABC_E3360 Neighboring gene acyl-Coenzyme A binding domain containing 5

    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 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. Quinone-responsive multiple respiratory-chain dysfunction due to widespread coenzyme Q10 deficiency. Rötig A, et al. Lancet, 2000 Jul 29. PMID 10972372
    2. Characterization of solanesyl and decaprenyl diphosphate synthases in mice and humans. Saiki R, et al. FEBS J, 2005 Nov. PMID 16262699
    3. The SRCAP chromatin remodeling complex promotes oxidative metabolism during prenatal heart development. Xu M, et al. Development, 2021 Apr 15. PMID 33913477
    4. Functional genomic landscape of cancer-intrinsic evasion of killing by T cells. Lawson KA, et al. Nature, 2020 Oct. PMID 32968282, Free PMC Article
    5. A mitochondrial protein compendium elucidates complex I disease biology. Pagliarini DJ, et al. Cell, 2008 Jul 11. PMID 18614015, Free PMC Article

    See all (20) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Variation

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    Alleles

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

    Pathways from PubChem

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    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
    contributes_to all-trans-decaprenyl-diphosphate synthase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    contributes_to all-trans-decaprenyl-diphosphate synthase activity ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    contributes_to all-trans-nonaprenyl-diphosphate synthase (geranyl-diphosphate specific) activity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables prenyltransferase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables protein heterodimerization activity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in isoprenoid biosynthetic process IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in isoprenoid biosynthetic process IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in isoprenoid biosynthetic process ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in ubiquinone biosynthetic process IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in ubiquinone biosynthetic process IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in ubiquinone biosynthetic process IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in ubiquinone biosynthetic process ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    part_of heterotetrameric polyprenyl diphosphate synthase complex IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    part_of heterotetrameric polyprenyl diphosphate synthase complex ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in mitochondrion HDA PubMed 
    is_active_in mitochondrion IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of polyprenyl diphosphate synthase complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    all trans-polyprenyl-diphosphate synthase PDSS1
    Names
    all-trans-decaprenyl-diphosphate synthase subunit 1
    decaprenyl pyrophosphate synthase subunit 1
    decaprenyl pyrophosphate synthetase subunit 1
    decaprenyl-diphosphate synthase subunit 1
    solanesyl-diphosphate synthase subunit 1
    subunit 1 of solanesyl diphosphate synthase
    trans-prenyltransferase 1
    NP_001342396.1
    NP_062374.2
    XP_006498251.1
    XP_006498252.1
    XP_006498254.1
    XP_017174623.1

    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_001355467.2 → NP_001342396.1  all trans-polyprenyl-diphosphate synthase PDSS1 isoform 2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) differs in the 3' UTR and coding sequence compared to variant 1. The resulting isoform (2) has a shorter and distinct C-terminus compared to isoform 1.
      Source sequence(s)
      CT030013
      Consensus CDS
      CCDS89432.1
      UniProtKB/TrEMBL
      Q9CZQ1
      Related
      ENSMUSP00000121873.2, ENSMUST00000152170.8
      Conserved Domains (1) summary
      cd00685
      Location:110 → 271
      Trans_IPPS_HT; Trans-Isoprenyl Diphosphate Synthases, head-to-tail

    2. NM_019501.4 → NP_062374.2  all trans-polyprenyl-diphosphate synthase PDSS1 isoform 1

      See identical proteins and their annotated locations for NP_062374.2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) encodes the longer isoform (1).
      Source sequence(s)
      CT030013
      Consensus CDS
      CCDS38057.1
      UniProtKB/Swiss-Prot
      B8JJW9, Q33DR2, Q9WU69
      Related
      ENSMUSP00000055689.8, ENSMUST00000053729.14
      Conserved Domains (1) summary
      cl00210
      Location:100 → 407
      Isoprenoid_Biosyn_C1; Isoprenoid Biosynthesis enzymes, Class 1

    RNA

    1. NR_149721.2 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) uses two alternate splice junctions compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
      Source sequence(s)
      CT030013

    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
      22784393..22830273
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006498191.5 → XP_006498254.1  all trans-polyprenyl-diphosphate synthase PDSS1 isoform X4

      Conserved Domains (1) summary
      PLN02890
      Location:1 → 258
      PLN02890; geranyl diphosphate synthase

    2. XM_006498188.5 → XP_006498251.1  all trans-polyprenyl-diphosphate synthase PDSS1 isoform X2

      Conserved Domains (1) summary
      PLN02890
      Location:57 → 371
      PLN02890; geranyl diphosphate synthase

    3. XM_006498189.5 → XP_006498252.1  all trans-polyprenyl-diphosphate synthase PDSS1 isoform X3

      Conserved Domains (1) summary
      PLN02890
      Location:16 → 368
      PLN02890; geranyl diphosphate synthase

    4. XM_017319134.3 → XP_017174623.1  all trans-polyprenyl-diphosphate synthase PDSS1 isoform X1

      Conserved Domains (1) summary
      PLN02890
      Location:21 → 373
      PLN02890; geranyl diphosphate synthase

    RNA

    1. XR_374108.5 RNA Sequence

    2. XR_001783152.3 RNA Sequence

    3. XR_001783150.3 RNA Sequence

    4. XR_001783153.2 RNA Sequence

    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q33DR2.1 GenPept UniProtKB/Swiss-Prot:Q33DR2

    Gene LinkOut

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