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

Gene ID: 56075, updated on 21-Apr-2024

Summary

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 trans-hexaprenyltranstransferase activity and trans-octaprenyltranstransferase activity. Involved in isoprenoid biosynthetic process and ubiquinone biosynthetic process. Located in mitochondrion. Part of transferase complex. 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, Apr 2022]
Expression
Ubiquitous expression in CNS E18 (RPKM 4.2), CNS E14 (RPKM 4.1) and 28 other tissues See more
Orthologs
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Genomic context

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

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

Variation

Alleles

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

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

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-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 
enables transferase activity IEA
Inferred from Electronic Annotation
more info
 
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
 
acts_upstream_of_or_within lipid metabolic process IEA
Inferred from Electronic Annotation
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 ISO
Inferred from Sequence Orthology
more info
 

General protein information

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_001355467.2NP_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:110271
    Trans_IPPS_HT; Trans-Isoprenyl Diphosphate Synthases, head-to-tail
  2. NM_019501.4NP_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:100407
    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_006498191.5XP_006498254.1  all trans-polyprenyl-diphosphate synthase PDSS1 isoform X4

    Conserved Domains (1) summary
    PLN02890
    Location:1258
    PLN02890; geranyl diphosphate synthase
  2. XM_006498188.5XP_006498251.1  all trans-polyprenyl-diphosphate synthase PDSS1 isoform X2

    Conserved Domains (1) summary
    PLN02890
    Location:57371
    PLN02890; geranyl diphosphate synthase
  3. XM_006498189.5XP_006498252.1  all trans-polyprenyl-diphosphate synthase PDSS1 isoform X3

    Conserved Domains (1) summary
    PLN02890
    Location:16368
    PLN02890; geranyl diphosphate synthase
  4. XM_017319134.3XP_017174623.1  all trans-polyprenyl-diphosphate synthase PDSS1 isoform X1

    Conserved Domains (1) summary
    PLN02890
    Location:21373
    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