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    Hpcal1 hippocalcin-like 1 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 50871, updated on 2-Nov-2024

    Summary

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    Official Symbol
    Hpcal1provided by RGD
    Official Full Name
    hippocalcin-like 1provided by RGD
    Primary source
    RGD:708375
    See related
    EnsemblRapid:ENSRNOG00000005492 AllianceGenome:RGD:708375
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Also known as
    Nvp3; NVP-3; VILIP-3
    Summary
    Predicted to enable calcium ion binding activity. Predicted to be involved in regulation of signal transduction. Predicted to be located in membrane. Orthologous to human HPCAL1 (hippocalcin like 1). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in Lung (RPKM 119.9), Brain (RPKM 115.9) and 9 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Hpcal1 in Genome Data Viewer
    Location:
    6q16
    Exon count:
    9
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 6 NC_086024.1 (46206809..46313364)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 6 NC_051341.1 (40478206..40584721)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 6 NC_005105.4 (43001920..43109083)

    Chromosome 6 - NC_086024.1Genomic Context describing neighboring genes Neighboring gene 60S ribosomal protein L35-like Neighboring gene prothymosin alpha, pseudogene 3 Neighboring gene uncharacterized LOC134479348 Neighboring gene uncharacterized LOC134479349

    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. Calcium-myristoyl switch, subcellular localization, and calcium-dependent translocation of the neuronal calcium sensor protein VILIP-3, and comparison with VILIP-1 in hippocampal neurons. Spilker C, et al. Mol Cell Neurosci, 2003 Nov. PMID 14664824
    2. Molecular cloning of two additional members of the neural visinin-like Ca(2+)-binding protein gene family. Kajimoto Y, et al. J Neurochem, 1993 Sep. PMID 8360675
    3. Evidence for different functional properties of the neuronal calcium sensor proteins VILIP-1 and VILIP-3: from subcellular localization to cellular function. Spilker C, et al. Biochim Biophys Acta, 2002 Nov 4. PMID 12445467
    4. Identification of Ca2+-dependent binding partners for the neuronal calcium sensor protein neurocalcin delta: interaction with actin, clathrin and tubulin. Ivings L, et al. Biochem J, 2002 May 1. PMID 11964161, Free PMC Article
    5. Synaptic protein ubiquitination in rat brain revealed by antibody-based ubiquitome analysis. Na CH, et al. J Proteome Res, 2012 Sep 7. PMID 22871113, Free PMC Article

    See all (9) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. direct comparison of the localization and calcium-dependent translocation of visinin-like-proteins 1 and 3 in hippocampal neurons
      Title: Calcium-myristoyl switch, subcellular localization, and calcium-dependent translocation of the neuronal calcium sensor protein VILIP-3, and comparison with VILIP-1 in hippocampal neurons.
    2. Evidence for different functional properties of NVP-1 and NVP-3: from subcellular localization to cellular function.
      Title: Evidence for different functional properties of the neuronal calcium sensor proteins VILIP-1 and VILIP-3: from subcellular localization to cellular function.
    Submit: New GeneRIF Correction

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Clone Names

    • MGC105459

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables calcium ion binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Process Evidence Code Pubs
    involved_in regulation of signal transduction IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    located_in membrane IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    hippocalcin-like protein 1
    Names
    NVL-3
    neural visinin-like Ca2+-binding protein type 3
    neural visinin-like protein 3
    visinin-like protein 3

    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_001394052.1 → NP_001380981.1  hippocalcin-like protein 1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000006
      UniProtKB/Swiss-Prot
      P62749
      UniProtKB/TrEMBL
      A6HAV3
      Conserved Domains (1) summary
      COG5126
      Location:13 → 179
      FRQ1; Ca2+-binding protein, EF-hand superfamily [Signal transduction mechanisms]

    2. NM_001394053.1 → NP_001380982.1  hippocalcin-like protein 1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000006
      UniProtKB/Swiss-Prot
      P62749
      UniProtKB/TrEMBL
      A6HAV3
      Related
      ENSRNOP00000007374.3, ENSRNOT00000007374.8
      Conserved Domains (1) summary
      COG5126
      Location:13 → 179
      FRQ1; Ca2+-binding protein, EF-hand superfamily [Signal transduction mechanisms]

    3. NM_017356.3 → NP_059052.1  hippocalcin-like protein 1

      See identical proteins and their annotated locations for NP_059052.1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000006
      UniProtKB/Swiss-Prot
      P62749
      UniProtKB/TrEMBL
      A6HAV3
      Conserved Domains (1) summary
      COG5126
      Location:13 → 179
      FRQ1; Ca2+-binding protein, EF-hand superfamily [Signal transduction mechanisms]

    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_086024.1 Reference GRCr8

      Range
      46206809..46313364
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_063262355.1 → XP_063118425.1  hippocalcin-like protein 1 isoform X1

      UniProtKB/Swiss-Prot
      P62749
      UniProtKB/TrEMBL
      A6HAV3

    2. XM_063262353.1 → XP_063118423.1  hippocalcin-like protein 1 isoform X1

      UniProtKB/Swiss-Prot
      P62749
      UniProtKB/TrEMBL
      A6HAV3

    3. XM_063262357.1 → XP_063118427.1  hippocalcin-like protein 1 isoform X1

      UniProtKB/Swiss-Prot
      P62749
      UniProtKB/TrEMBL
      A6HAV3

    4. XM_063262356.1 → XP_063118426.1  hippocalcin-like protein 1 isoform X1

      UniProtKB/Swiss-Prot
      P62749
      UniProtKB/TrEMBL
      A6HAV3

    5. XM_039112773.2 → XP_038968701.1  hippocalcin-like protein 1 isoform X1

      UniProtKB/Swiss-Prot
      P62749
      UniProtKB/TrEMBL
      A6HAV3
      Conserved Domains (1) summary
      COG5126
      Location:13 → 179
      FRQ1; Ca2+-binding protein, EF-hand superfamily [Signal transduction mechanisms]

    6. XM_063262354.1 → XP_063118424.1  hippocalcin-like protein 1 isoform X1

      UniProtKB/Swiss-Prot
      P62749
      UniProtKB/TrEMBL
      A6HAV3
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    P62749.2 GenPept UniProtKB/Swiss-Prot:P62749

    Gene LinkOut

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