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hpca hippocalcin [ Danio rerio (zebrafish) ]

Gene ID: 393696, updated on 27-Mar-2024

Summary

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Official Symbol
hpcaprovided by ZNC
Official Full Name
hippocalcinprovided by ZNC
Primary source
ZFIN:ZDB-GENE-040426-1683
See related
Ensembl:ENSDARG00000018397 AllianceGenome:ZFIN:ZDB-GENE-040426-1683
Gene type
protein coding
RefSeq status
PROVISIONAL
Organism
Danio rerio
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as
zgc:73126
Summary
Predicted to enable calcium ion binding activity. Is expressed in hatching gland; nervous system; neural rod; and neural tube. Human ortholog(s) of this gene implicated in torsion dystonia 2. Orthologous to human HPCA (hippocalcin). [provided by Alliance of Genome Resources, Apr 2022]
Orthologs
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Genomic context

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Location:
chromosome: 19
Exon count:
5
Annotation release Status Assembly Chr Location
106 current GRCz11 (GCF_000002035.6) 19 NC_007130.7 (32623230..32710922, complement)
105 previous assembly GRCz10 (GCF_000002035.5) 19 NC_007130.6 (33036113..33123802, complement)

Chromosome 19 - NC_007130.7Genomic Context describing neighboring genes Neighboring gene zgc:91944 Neighboring gene transmembrane protein 54b Neighboring gene 5'-nucleotidase, cytosolic IAa Neighboring gene serine/threonine kinase 3 (STE20 homolog, yeast)

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
  • Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
  • BioProject: PRJEB1986
  • Analysis date: Fri Dec 8 19:48:10 2017

Bibliography

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Related articles in PubMed

  1. Non-nuclear Pool of Splicing Factor SFPQ Regulates Axonal Transcripts Required for Normal Motor Development. Thomas-Jinu S, et al. Neuron, 2017 Apr 19. PMID 28392072, Free PMC Article
  2. Gene expression profiling of granule cells and Purkinje cells in the zebrafish cerebellum. Takeuchi M, et al. J Comp Neurol, 2017 May 1. PMID 27615194
  3. Evolution of complexity in the zebrafish synapse proteome. Bayés À, et al. Nat Commun, 2017 Mar 2. PMID 28252024, Free PMC Article
  4. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article
  5. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

See all (6) citations in PubMed

GeneRIFs: Gene References Into Functions

General gene information

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Markers

Homology

Clone Names

  • MGC73126

Gene Ontology Provided by ZFIN

Function Evidence Code Pubs
enables calcium ion binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables calcium ion binding IEA
Inferred from Electronic Annotation
more info
  
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
  
Component Evidence Code Pubs
is_active_in cellular_component ND
No biological Data available
more info
  
located_in cytosol IEA
Inferred from Electronic Annotation
more info
  
located_in membrane IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
neuron-specific calcium-binding protein hippocalcin

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_200723.1 → NP_957017.1  neuron-specific calcium-binding protein hippocalcin

    See identical proteins and their annotated locations for NP_957017.1

    Status: PROVISIONAL

    Source sequence(s)
    BC059489
    UniProtKB/TrEMBL
    A0A8M1PHR1, Q6PC34
    Related
    ENSDARP00000012565.6, ENSDART00000004034.8
    Conserved Domains (1) summary
    COG5126
    Location:13 → 179
    FRQ1; Ca2+-binding protein, EF-hand superfamily [Signal transduction mechanisms]

RefSeqs of Annotated Genomes: Danio rerio Annotation Release 106 details...Open this link in a new tab

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

Reference GRCz11 Primary Assembly

Genomic

  1. NC_007130.7 Reference GRCz11 Primary Assembly

    Range
    32623230..32710922 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_021468015.1 → XP_021323690.1  neuron-specific calcium-binding protein hippocalcin isoform X1

    UniProtKB/TrEMBL
    A0A8M1PHR1, Q6PC34
    Related
    ENSDARP00000153855.1, ENSDART00000188185.1
    Conserved Domains (1) summary
    COG5126
    Location:13 → 179
    FRQ1; Ca2+-binding protein, EF-hand superfamily [Signal transduction mechanisms]

Reference GRCz11 ALT_DRER_TU_1

Genomic

  1. NW_018395055.1 Reference GRCz11 ALT_DRER_TU_1

    Range
    79782..174670 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein Strain
Heading Accession and Version

Gene LinkOut

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