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Aliases for HPCAL1 Gene

Aliases for HPCAL1 Gene

  • Hippocalcin Like 1 2 3
  • Calcium-Binding Protein BDR-1 2 3 4
  • Visinin-Like Protein 3 2 3 4
  • Hippocalcin-Like 1 3 5
  • VILIP-3 3 4
  • HLP2 3 4
  • BDR1 3 4

External Ids for HPCAL1 Gene

Previous GeneCards Identifiers for HPCAL1 Gene

  • GC02P010228
  • GC02P010494
  • GC02P010464
  • GC02P010443

Summaries for HPCAL1 Gene

Entrez Gene Summary for HPCAL1 Gene

  • The protein encoded by this gene is a member of neuron-specific calcium-binding proteins family found in the retina and brain. It is highly similar to human hippocalcin protein and nearly identical to the rat and mouse hippocalcin like-1 proteins. It may be involved in the calcium-dependent regulation of rhodopsin phosphorylation and may be of relevance for neuronal signalling in the central nervous system. Several alternatively spliced transcript variants encoding the same protein have been found for this gene. [provided by RefSeq, Apr 2012]

GeneCards Summary for HPCAL1 Gene

HPCAL1 (Hippocalcin Like 1) is a Protein Coding gene. Among its related pathways are Visual Cycle in Retinal Rods. GO annotations related to this gene include calcium ion binding. An important paralog of this gene is KCNIP3.

UniProtKB/Swiss-Prot for HPCAL1 Gene

  • May be involved in the calcium-dependent regulation of rhodopsin phosphorylation.

Gene Wiki entry for HPCAL1 Gene

No data available for Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for HPCAL1 Gene

Genomics for HPCAL1 Gene

Regulatory Elements for HPCAL1 Gene

Enhancers for HPCAL1 Gene
GeneHancer Identifier Score Enhancer Sources TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Other Gene Targets for Enhancer

Enhancers around HPCAL1 on UCSC Golden Path with GeneCards custom track

Promoters for HPCAL1 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters

ENSRs around HPCAL1 on UCSC Golden Path with GeneCards custom track

Genomic Location for HPCAL1 Gene

10,302,889 bp from pter
10,427,617 bp from pter
124,729 bases
Plus strand

Genomic View for HPCAL1 Gene

Genes around HPCAL1 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
HPCAL1 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for HPCAL1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for HPCAL1 Gene

Proteins for HPCAL1 Gene

  • Protein details for HPCAL1 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    Hippocalcin-like protein 1
    Protein Accession:
    Secondary Accessions:
    • Q969S5

    Protein attributes for HPCAL1 Gene

    193 amino acids
    Molecular mass:
    22313 Da
    Quaternary structure:
    No Data Available
    • Probably binds two or three calcium ions.

neXtProt entry for HPCAL1 Gene

Proteomics data for HPCAL1 Gene at MOPED

Post-translational modifications for HPCAL1 Gene

  • Ubiquitination at Lys 7
  • Modification sites at PhosphoSitePlus

No data available for DME Specific Peptides for HPCAL1 Gene

Domains & Families for HPCAL1 Gene

Gene Families for HPCAL1 Gene

Protein Domains for HPCAL1 Gene

Graphical View of Domain Structure for InterPro Entry



  • Contains 4 EF-hand domains.
  • Belongs to the recoverin family.
  • Contains 4 EF-hand domains.
  • Belongs to the recoverin family.
genes like me logo Genes that share domains with HPCAL1: view

Function for HPCAL1 Gene

Molecular function for HPCAL1 Gene

GENATLAS Biochemistry:
calcium binding protein,hippocalcin-like,expressed in brain
UniProtKB/Swiss-Prot Function:
May be involved in the calcium-dependent regulation of rhodopsin phosphorylation.
genes like me logo Genes that share phenotypes with HPCAL1: view

Animal Model Products

  • Taconic Biosciences Mouse Models for HPCAL1

No data available for Enzyme Numbers (IUBMB) , Gene Ontology (GO) - Molecular Function , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for HPCAL1 Gene

Localization for HPCAL1 Gene

Subcellular locations from UniProtKB/Swiss-Prot for HPCAL1 Gene

Membrane; Lipid-anchor.

Subcellular locations from

Jensen Localization Image for HPCAL1 Gene COMPARTMENTS Subcellular localization image for HPCAL1 gene
Compartment Confidence
extracellular 5
cytosol 3
nucleus 2

No data available for Gene Ontology (GO) - Cellular Components for HPCAL1 Gene

Pathways & Interactions for HPCAL1 Gene

SuperPathways for HPCAL1 Gene

genes like me logo Genes that share pathways with HPCAL1: view

Pathways by source for HPCAL1 Gene

1 Qiagen pathway for HPCAL1 Gene

Gene Ontology (GO) - Biological Process for HPCAL1 Gene


No data available for SIGNOR curated interactions for HPCAL1 Gene

Drugs & Compounds for HPCAL1 Gene

(1) Drugs for HPCAL1 Gene - From: HMDB and Novoseek

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
calcium Nutra 0
genes like me logo Genes that share compounds with HPCAL1: view

Transcripts for HPCAL1 Gene

Unigene Clusters for HPCAL1 Gene

Hippocalcin-like 1:
Representative Sequences:

Alternative Splicing Database (ASD) splice patterns (SP) for HPCAL1 Gene

ExUns: 1a · 1b ^ 2 ^ 3 ^ 4a · 4b ^ 5 ^ 6 ^ 7 ^ 8a · 8b ^ 9 ^ 10a · 10b ^ 11 ^ 12 ^ 13a · 13b · 13c · 13d
SP1: - - - - - - - -
SP2: - - - - - - - - -
SP3: - - - - -
SP5: - - - - - -
SP6: - - - -
SP8: - - -
SP9: - -

Relevant External Links for HPCAL1 Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for HPCAL1 Gene

mRNA expression in normal human tissues for HPCAL1 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for HPCAL1 Gene

This gene is overexpressed in Brain - Cerebellar Hemisphere (x5.0) and Brain - Cerebellum (x4.4).

Protein differential expression in normal tissues from HIPED for HPCAL1 Gene

This gene is overexpressed in Bone (21.3).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MOPED, and MaxQB for HPCAL1 Gene

SOURCE GeneReport for Unigene cluster for HPCAL1 Gene Hs.580427

genes like me logo Genes that share expression patterns with HPCAL1: view

Protein tissue co-expression partners for HPCAL1 Gene

- Elite partner

Primer Products

No data available for mRNA Expression by UniProt/SwissProt for HPCAL1 Gene

Orthologs for HPCAL1 Gene

This gene was present in the common ancestor of animals.

Orthologs for HPCAL1 Gene

Organism Taxonomy Gene Similarity Type Details
(Bos Taurus)
Mammalia HPCAL1 35
  • 93.78 (n)
  • 99.48 (a)
  • 99 (a)
(Canis familiaris)
Mammalia HPCAL1 35
  • 94.13 (n)
  • 99.48 (a)
  • 99 (a)
(Mus musculus)
Mammalia Hpcal1 35
  • 92.06 (n)
  • 98.45 (a)
Hpcal1 16
Hpcal1 36
  • 98 (a)
(Pan troglodytes)
Mammalia HPCAL1 35
  • 99.31 (n)
  • 99.48 (a)
  • 99 (a)
(Rattus norvegicus)
Mammalia Hpcal1 35
  • 92.4 (n)
  • 98.45 (a)
(Monodelphis domestica)
Mammalia HPCAL1 36
  • 99 (a)
(Ornithorhynchus anatinus)
Mammalia HPCAL1 36
  • 90 (a)
(Gallus gallus)
Aves HPCAL1 35
  • 87.74 (n)
  • 98.45 (a)
  • 98 (a)
(Anolis carolinensis)
Reptilia HPCAL1 36
  • 99 (a)
tropical clawed frog
(Silurana tropicalis)
Amphibia hpcal1 35
  • 82.9 (n)
  • 97.41 (a)
(Danio rerio)
Actinopterygii zgc73126 35
zgc:63695 35
  • 83.42 (n)
  • 91.19 (a)
  • 91 (a)
fruit fly
(Drosophila melanogaster)
Insecta CG5744 37
  • 59 (a)
CG7646 37
  • 47 (a)
Frq 37
  • 58 (a)
Nca 37
  • 89 (a)
Nca 35
  • 70.37 (n)
  • 89.42 (a)
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP007247 35
  • 76.72 (n)
  • 88.36 (a)
(Caenorhabditis elegans)
Secernentea ncs-2 37
  • 51 (a)
ncs-3 37
  • 55 (a)
sea squirt
(Ciona savignyi)
Ascidiacea -- 36
  • 80 (a)
Species with no ortholog for HPCAL1:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for HPCAL1 Gene

Gene Tree for HPCAL1 (if available)
Gene Tree for HPCAL1 (if available)

Paralogs for HPCAL1 Gene

genes like me logo Genes that share paralogs with HPCAL1: view

Variants for HPCAL1 Gene

Sequence variations from dbSNP and Humsavar for HPCAL1 Gene

SNP ID Clin Chr 02 pos Sequence Context AA Info Type
rs1558628 -- 10,338,296(-) CAGTG(A/G)TTTTC intron-variant
rs1558629 -- 10,338,238(-) AGAAC(A/G)CTTTT intron-variant
rs1558630 -- 10,338,187(-) TTCCC(A/G)TCCCT intron-variant
rs741262 -- 10,327,593(-) AGTTA(C/G/T)TTGAA intron-variant
rs1808315 -- 10,402,878(-) TTTTG(C/T)GCAGG intron-variant

Structural Variations from Database of Genomic Variants (DGV) for HPCAL1 Gene

Variant ID Type Subtype PubMed ID
nsv873639 CNV Loss 21882294
esv27364 CNV Loss 19812545
esv2719644 CNV Deletion 23290073
dgv628e201 CNV Deletion 23290073
esv2719646 CNV Deletion 23290073
esv2719648 CNV Deletion 23290073
esv2719650 CNV Deletion 23290073
nsv873641 CNV Loss 21882294
nsv873642 CNV Loss 21882294
nsv508827 CNV Insertion 20534489
nsv2605 CNV Insertion 18451855
dgv4051n71 CNV Loss 21882294
dgv4052n71 CNV Loss 21882294
esv1007136 CNV Insertion 20482838
dgv679e199 CNV Deletion 23128226

Variation tolerance for HPCAL1 Gene

Residual Variation Intolerance Score: 32.8% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 0.36; 7.94% of all genes are more intolerant (likely to be disease-causing)

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Relevant External Links for HPCAL1 Gene

Disorders for HPCAL1 Gene

Relevant External Links for HPCAL1

Genetic Association Database (GAD)
Human Genome Epidemiology (HuGE) Navigator
Atlas of Genetics and Cytogenetics in Oncology and Haematology:

No disorders were found for HPCAL1 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for HPCAL1 Gene

Publications for HPCAL1 Gene

  1. Molecular cloning of a novel calcium-binding protein structurally related to hippocalcin from human brain and chromosomal mapping of its gene. (PMID: 8038222) Kobayashi M. … Noguchi T. (Biochim. Biophys. Acta 1994) 2 3 4 67
  2. Functional contribution of Ca2+ and Mg2+ to the intermolecular interaction of visinin-like proteins. (PMID: 16703469) Jheng F.F. … Chang L.S. (Protein J. 2006) 3 23
  3. Hypertension susceptibility genes on chromosome 2p24-p25 in a general Japanese population. (PMID: 15834280) Kamide K. … Miyata T. (J. Hypertens. 2005) 3 23
  4. Neuronal calcium sensor protein visinin-like protein-3 interacts with microsomal cytochrome b5 in a Ca2+-dependent manner. (PMID: 14739275) Oikawa K. … Tateno M. (J. Biol. Chem. 2004) 2 3
  5. Abnormal localization of two neuronal calcium sensor proteins, visinin-like proteins (vilips)-1 and -3, in neocortical brain areas of Alzheimer disease patients. (PMID: 11173883) Braunewell K. … Bernstein H.G. (Dement Geriatr Cogn Disord 2001) 3 23

Products for HPCAL1 Gene

Sources for HPCAL1 Gene