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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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