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    SVL5 SHV3-like 5 [ Arabidopsis thaliana (thale cress) ]

    Gene ID: 835929, updated on 18-Sep-2024

    Summary

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    Official Symbol
    SVL5
    Official Full Name
    SHV3-like 5
    Primary source
    TAIR:AT5G58170
    Locus tag
    AT5G58170
    See related
    Araport:AT5G58170
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Arabidopsis thaliana (ecotype: Columbia)
    Lineage
    Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta; Spermatophyta; Magnoliopsida; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Arabidopsis
    Also known as
    GDPDL7; Glycerophosphodiester phosphodiesterase (GDPD) like 7; MCK7.4; MCK7_4; SHV3-like 5
    Summary
    Encodes a member of the glycerophosphodiester phosphodiesterase like (GDPD-like) family.
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    Genomic context

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    See SVL5 in Genome Data Viewer
    Location:
    chromosome: 5
    Exon count:
    9
    Sequence:
    Chromosome: 5; NC_003076.8 (23540049..23543345, complement)

    Chromosome 5 - NC_003076.8Genomic Context describing neighboring genes Neighboring gene phototropin 2 Neighboring gene Leucine-rich repeat protein kinase family protein Neighboring gene actin binding protein Neighboring gene Synaptobrevin family protein Neighboring gene evolutionarily conserved C-terminal region 10 Neighboring gene Calcineurin-like metallo-phosphoesterase superfamily protein

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_003076.8

    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. Arabidopsis pollen-specific glycerophosphodiester phosphodiesterase-like genes are essential for pollen tube tip growth. Wang C, et al. J Integr Plant Biol, 2023 Aug. PMID 37014030
    2. A DEK domain-containing protein modulates chromatin structure and function in Arabidopsis. Waidmann S, et al. Plant Cell, 2014 Nov. PMID 25387881, Free PMC Article
    3. Identification of glycosylphosphatidylinositol-anchored proteins in Arabidopsis. A proteomic and genomic analysis. Borner GH, et al. Plant Physiol, 2003 Jun. PMID 12805588, Free PMC Article
    4. Prediction of glycosylphosphatidylinositol-anchored proteins in Arabidopsis. A genomic analysis. Borner GH, et al. Plant Physiol, 2002 Jun. PMID 12068095, Free PMC Article
    5. Sequence and analysis of chromosome 5 of the plant Arabidopsis thaliana. Tabata S, et al. Nature, 2000 Dec 14. PMID 11130714

    GeneRIFs: Gene References Into Functions

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Homology

    NM_125202.2

    Gene Ontology Provided by TAIR

    Function Evidence Code Pubs
    enables glycerophosphodiester phosphodiesterase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in lipid metabolic process IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in pollen tube development IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    involved_in pollen tube growth IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in chloroplast ISM
    Inferred from Sequence Model
    more info
    		  
    located_in membrane TAS
    Traceable Author Statement
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    SHV3-like 5
    NP_200625.1
    • SHV3-like 5 (SVL5); FUNCTIONS IN: phosphoric diester hydrolase activity, glycerophosphodiester phosphodiesterase activity; INVOLVED IN: glycerol metabolic process, lipid metabolic process; LOCATED IN: anchored to membrane; EXPRESSED IN: 14 plant structures; EXPRESSED DURING: L mature pollen stage, M germinated pollen stage, 4 anthesis, C globular stage, petal differentiation and expansion stage; CONTAINS InterPro DOMAIN/s: PLC-like phosphodiesterase, TIM beta/alpha-barrel domain (InterPro:IPR017946), Glycerophosphoryl diester phosphodiesterase (InterPro:IPR004129); BEST Arabidopsis thaliana protein match is: SHV3-like 4 (TAIR:AT5G58050.1); Has 2139 Blast hits to 1578 proteins in 572 species: Archae - 0; Bacteria - 1688; Metazoa - 15; Fungi - 4; Plants - 324; Viruses - 0; Other Eukaryotes - 108 (source: NCBI BLink).

    NCBI Reference Sequences (RefSeq)

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    Genome Annotation

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

    Reference assembly

    Genomic

    1. NC_003076.8 Reference assembly

      Range
      23540049..23543345 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_125202.2 → NP_200625.1  SHV3-like 5 [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_200625.1

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      Q8GXJ8, Q9LVN0
      UniProtKB/TrEMBL
      A0A178UC37, A0A5S9YF42, A0A654GC12
      Conserved Domains (2) summary
      cd08603
      Location:41 → 338
      GDPD_SHV3_repeat_1; Glycerophosphodiester phosphodiesterase domain repeat 1 of glycerophosphodiester phosphodiesterase-like protein SHV3 and SHV3-like proteins
      cd08604
      Location:355 → 653
      GDPD_SHV3_repeat_2; Glycerophosphodiester phosphodiesterase domain repeat 2 of glycerophosphodiester phosphodiesterase-like protein SHV3 and SHV3-like proteins
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9LVN0.1

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