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

    Gene ID: 50871, updated on 10-Jul-2024

    Summary

    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 located in membrane. Orthologous to human HPCAL1 (hippocalcin like 1). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in Lung (RPKM 119.9), Brain (RPKM 115.9) and 9 other tissues See more
    Orthologs
    NEW
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    Try the new Transcript table

    Genomic context

    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

    Expression

    • Project title: 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

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    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
     
    Component Evidence Code Pubs
    located_in membrane IEA
    Inferred from Electronic Annotation
    more info
     

    General protein information

    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)

    NEW Try the new Transcript table

    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_001394052.1NP_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:13179
      FRQ1; Ca2+-binding protein, EF-hand superfamily [Signal transduction mechanisms]
    2. NM_001394053.1NP_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:13179
      FRQ1; Ca2+-binding protein, EF-hand superfamily [Signal transduction mechanisms]
    3. NM_017356.3NP_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:13179
      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_063262355.1XP_063118425.1  hippocalcin-like protein 1 isoform X1

      UniProtKB/Swiss-Prot
      P62749
      UniProtKB/TrEMBL
      A6HAV3
    2. XM_063262353.1XP_063118423.1  hippocalcin-like protein 1 isoform X1

      UniProtKB/Swiss-Prot
      P62749
      UniProtKB/TrEMBL
      A6HAV3
    3. XM_063262357.1XP_063118427.1  hippocalcin-like protein 1 isoform X1

      UniProtKB/Swiss-Prot
      P62749
      UniProtKB/TrEMBL
      A6HAV3
    4. XM_063262356.1XP_063118426.1  hippocalcin-like protein 1 isoform X1

      UniProtKB/Swiss-Prot
      P62749
      UniProtKB/TrEMBL
      A6HAV3
    5. XM_039112773.2XP_038968701.1  hippocalcin-like protein 1 isoform X1

      UniProtKB/Swiss-Prot
      P62749
      UniProtKB/TrEMBL
      A6HAV3
      Conserved Domains (1) summary
      COG5126
      Location:13179
      FRQ1; Ca2+-binding protein, EF-hand superfamily [Signal transduction mechanisms]
    6. XM_063262354.1XP_063118424.1  hippocalcin-like protein 1 isoform X1

      UniProtKB/Swiss-Prot
      P62749
      UniProtKB/TrEMBL
      A6HAV3