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    Ggps1 geranylgeranyl diphosphate synthase 1 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 291211, updated on 2-Nov-2024

    Summary

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    Official Symbol
    Ggps1provided by RGD
    Official Full Name
    geranylgeranyl diphosphate synthase 1provided by RGD
    Primary source
    RGD:1359680
    See related
    EnsemblRapid:ENSRNOG00000016767 AllianceGenome:RGD:1359680
    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
    Also known as
    Crlf3; rGGPS1a; rGGPS1a1; rGGPS1a2; rGGPS1a3
    Summary
    Predicted to enable farnesyltranstransferase activity; geranyltranstransferase activity; and identical protein binding activity. Predicted to be involved in isoprenoid biosynthetic process. Predicted to be located in several cellular components, including Z disc; nucleoplasm; and perinuclear region of cytoplasm. Orthologous to human GGPS1 (geranylgeranyl diphosphate synthase 1). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in Adrenal (RPKM 61.4), Spleen (RPKM 59.7) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Ggps1 in Genome Data Viewer
    Location:
    17q12.1
    Exon count:
    8
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 17 NC_086035.1 (55958750..55982762)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 17 NC_051352.1 (51263262..51282471)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 17 NC_005116.4 (53956185..53971039)

    Chromosome 17 - NC_086035.1Genomic Context describing neighboring genes Neighboring gene HECT, C2 and WW domain containing E3 ubiquitin protein ligase 1 Neighboring gene Y-box-binding protein 1-like Neighboring gene AT-rich interaction domain 4B Neighboring gene tubulin folding cofactor E Neighboring gene beta-1,3-N-acetylgalactosaminyltransferase 2 Neighboring gene ribosomal protein S19 like 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 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 carboxyl-terminal region of the geranylgeranyl diphosphate synthase is indispensable for the stabilization of the region involved in substrate binding and catalysis. Matsumura Y, et al. J Biochem, 2007 Oct. PMID 17846065
    2. Relationship between intron 4b splicing of the rat geranylgeranyl diphosphate synthase gene and the active enzyme expression level. Matsumura Y, et al. J Biochem, 2004 Sep. PMID 15598886
    3. Human geranylgeranyl diphosphate synthase: isolation of the cDNA, chromosomal mapping and tissue expression. Ericsson J, et al. J Lipid Res, 1998 Sep. PMID 9741684
    4. Identification of the GGPS1 genes encoding geranylgeranyl diphosphate synthases from mouse and human. Kainou T, et al. Biochim Biophys Acta, 1999 Mar 25. PMID 10101267
    5. Human geranylgeranyl diphosphate synthase. cDNA cloning and expression. Kuzuguchi T, et al. J Biol Chem, 1999 Feb 26. PMID 10026212

    See all (10) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. KMFTEENE fragment residing on the carboxyl-terminal sequence of geranylgeranyl diphosphate synthase stabilizes the active region involved in the substrate binding and catalysis.
      Title: The carboxyl-terminal region of the geranylgeranyl diphosphate synthase is indispensable for the stabilization of the region involved in substrate binding and catalysis.
    2. expression level of rat active GGPS is regulated through the splicing of intron 4b of its gene
      Title: Relationship between intron 4b splicing of the rat geranylgeranyl diphosphate synthase gene and the active enzyme expression level.
    Submit: New GeneRIF Correction

    Pathways from PubChem

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    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables dimethylallyltranstransferase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables farnesyltranstransferase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables farnesyltranstransferase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables farnesyltranstransferase activity ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    enables geranyltranstransferase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables identical protein binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables prenyltransferase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in farnesyl diphosphate biosynthetic process IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in geranyl diphosphate biosynthetic process IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in geranylgeranyl diphosphate biosynthetic process IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in isoprenoid biosynthetic process IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in isoprenoid biosynthetic process IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in isoprenoid metabolic process ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in isoprenoid metabolic process ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    Component Evidence Code Pubs
    located_in Z disc ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in Z disc ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    located_in cytoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in cytoplasm ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    located_in cytosol IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in cytosol ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in perinuclear region of cytoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in perinuclear region of cytoplasm ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  

    General protein information

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    Preferred Names
    geranylgeranyl pyrophosphate synthase
    Names
    (2E,6E)-farnesyl diphosphate synthase
    GGPP synthase
    GGPP synthetase
    GGPPSase
    dimethylallyltranstransferase
    farnesyl diphosphate synthase
    farnesyltranstransferase
    geranylgeranyl pyrophosphate synthetase
    geranyltranstransferase
    NP_001007627.1
    XP_008769921.1
    XP_038951449.1
    XP_038951450.1
    XP_038951451.1
    XP_063132269.1
    XP_063132270.1

    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_001007626.4 → NP_001007627.1  geranylgeranyl pyrophosphate synthase

      See identical proteins and their annotated locations for NP_001007627.1

      Status: PROVISIONAL

      Source sequence(s)
      JAXUCZ010000017
      UniProtKB/Swiss-Prot
      Q6F596
      Related
      ENSRNOP00000094969.2, ENSRNOT00000095806.2
      Conserved Domains (1) summary
      pfam00348
      Location:9 → 251
      polyprenyl_synt; Polyprenyl synthetase

    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_086035.1 Reference GRCr8

      Range
      55958750..55982762
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_063276199.1 → XP_063132269.1  geranylgeranyl pyrophosphate synthase isoform X2

    2. XM_063276200.1 → XP_063132270.1  geranylgeranyl pyrophosphate synthase isoform X4

      UniProtKB/TrEMBL
      A6K9C8

    3. XM_039095523.2 → XP_038951451.1  geranylgeranyl pyrophosphate synthase isoform X3

      Conserved Domains (1) summary
      pfam00348
      Location:9 → 232
      polyprenyl_synt; Polyprenyl synthetase

    4. XM_008771699.3 → XP_008769921.1  geranylgeranyl pyrophosphate synthase isoform X5

      See identical proteins and their annotated locations for XP_008769921.1

      Conserved Domains (1) summary
      pfam00348
      Location:1 → 197
      polyprenyl_synt; Polyprenyl synthetase

    5. XM_039095522.2 → XP_038951450.1  geranylgeranyl pyrophosphate synthase isoform X1

      UniProtKB/Swiss-Prot
      Q6F596
      Conserved Domains (1) summary
      pfam00348
      Location:9 → 251
      polyprenyl_synt; Polyprenyl synthetase

    6. XM_039095521.2 → XP_038951449.1  geranylgeranyl pyrophosphate synthase isoform X1

      UniProtKB/Swiss-Prot
      Q6F596
      Conserved Domains (1) summary
      pfam00348
      Location:9 → 251
      polyprenyl_synt; Polyprenyl synthetase
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q6F596.1 GenPept UniProtKB/Swiss-Prot:Q6F596

    Gene LinkOut

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

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