Aliases for HPCAL1 Gene
Aliases for HPCAL1 Gene
External Ids for HPCAL1 Gene
- HGNC: 5145
- Entrez Gene: 3241
- Ensembl: ENSG00000115756
- OMIM: 600207
- UniProtKB: P37235
Previous GeneCards Identifiers for HPCAL1 Gene
- GC02P010228
- GC02P010494
- GC02P010464
- GC02P010443
Summaries 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 HPCA.
UniProtKB/Swiss-Prot for HPCAL1 Gene
-
May be involved in the calcium-dependent regulation of rhodopsin phosphorylation.
No data available for CIViC summary , 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
- Elite enhancer and/or Elite enhancer-gene association
Download GeneHancer data dump
Enhancers around HPCAL1 on UCSC Golden Path with GeneCards custom track
- Transcription factor binding sites by QIAGEN in the HPCAL1 gene promoter:
Regulatory Element Products
Genomic Location for HPCAL1 Gene
- Chromosome:
- 2
- Start:
- 10,302,889 bp from pter
- End:
- 10,427,617 bp from pter
- Size:
- 124,729 bases
- Orientation:
- Plus strand
Genomic View for HPCAL1 Gene
Genes around HPCAL1 on UCSC Golden Path with GeneCards custom track
- Cytogenetic band:
-
- 2p25.1 by Ensembl
- 2p25.1 by Entrez Gene
- 2p25.1 by HGNC
HPCAL1 Gene in genomic location: bands according to
Ensembl, locations according to GeneLoc
(and/or Entrez Gene and/or Ensembl if different)
Genomic Neighborhood
• Exon Structure
• Gene Density
RefSeq DNA sequence for HPCAL1 Gene
Proteins for HPCAL1 Gene
-
Protein details for HPCAL1 Gene (UniProtKB/Swiss-Prot)
- Protein Symbol:
- P37235-HPCL1_HUMAN
- Recommended name:
- Hippocalcin-like protein 1
- Protein Accession:
- P37235
- Q969S5
Protein attributes for HPCAL1 Gene
- Size:
- 193 amino acids
- Molecular mass:
- 22313 Da
- Quaternary structure:
- No Data Available
- Miscellaneous:
-
- Probably binds two or three calcium ions.
Protein Expression for HPCAL1 Gene
Post-translational modifications for HPCAL1 Gene
Other Protein References for HPCAL1 Gene
- ENSEMBL proteins:
- REFSEQ proteins:
Antibody Products
-
Custom Antibody ServicesOriGene Antibodies for HPCAL1
- Novus Biologicals Antibodies for HPCAL1
- Invitrogen Antibodies for HPCAL1
- antibodies-online Antibodies for HPCAL1: See all 23
- GeneTex HPCAL1 antibody for HPCAL1
Protein Products
- Search Origene for MassSpec and Protein Over-expression Lysates for HPCAL1
- Origene Custom Protein Services for HPCAL1
- ProSpec Recombinant Proteins for HPCAL1
- antibodies-online Proteins for HPCAL1: See all 25
- Search antibodies-online for peptides
- Search GeneTex for Proteins for HPCAL1
-
ProSci Proteins for HPCAL1
Assay Products
- antibodies-online Kits for HPCAL1: See all 4
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
- InterPro:
- Blocks:
- ProtoNet:
Suggested Antigen Peptide Sequences for HPCAL1 Gene
- GenScript: Design optimal peptide antigens:
Graphical View of Domain Structure for InterPro Entry
P37235- Family:
-
- Belongs to the recoverin family.
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.
| GO ID | Qualified GO term | Evidence | PubMed IDs |
|---|---|---|---|
| GO:0005509 | calcium ion binding | IEA | -- |
| GO:0005515 | protein binding | IPI | 16189514 |
| GO:0046872 | metal ion binding | IEA | -- |
Phenotypes for HPCAL1 Gene
- GenomeRNAi human phenotypes for HPCAL1:
-
- Increased viability
- Increased vaccinia virus (VACV) infection
- Decreased viability in esophageal squamous lineage
- Increased shRNA abundance (Z-score > 2)
- Decreased shRNA abundance (Z-score < -2)
- Dynamic nuclei (hole, folded or small irregular)
- Decreased human papilloma virus 16 (HPV16) pseudovirus infection
Animal Model Products
-
Taconic Biosciences Mouse Models for HPCAL1
-
ViGene Biosciences lentiviral particle packaged cDNA for HPCAL1 gene
-
ViGene Biosciences ready-to-package AAV shRNAs for HPCAL1 gene
- Search ViGene Biosciences for HPCAL1
CRISPR Products
-
OriGene CRISPR knockouts for HPCAL1
-
Santa Cruz Biotechnology (SCBT) CRISPR for HPCAL1
- GenScript: Design CRISPR guide RNA sequences for HPCAL1
miRNA for HPCAL1 Gene
- miRTarBase miRNAs that target HPCAL1
-
- hsa-mir-7-5p (MIRT025893)
- hsa-mir-3976 (MIRT487657)
- hsa-mir-8085 (MIRT487658)
- hsa-mir-6731-5p (MIRT487659)
- hsa-mir-4745-3p (MIRT487660)
- hsa-mir-1538 (MIRT487661)
- hsa-mir-873-5p (MIRT487662)
- hsa-mir-6746-5p (MIRT487663)
- hsa-mir-6784-5p (MIRT487664)
- hsa-mir-4532 (MIRT487665)
- hsa-mir-1247-3p (MIRT487666)
- hsa-mir-4747-3p (MIRT487667)
- hsa-mir-6165 (MIRT487668)
- hsa-mir-2278 (MIRT487669)
miRNA Products
- Search ViGene Biosciences for HPCAL1
Inhibitory RNA Products
- Origene RNAi, siRNA, and shRNA products in human, mouse, rat for HPCAL1
- Browse OriGene Inhibitory RNA Products For HPCAL1
-
ViGene Biosciences ready-to-package AAV shRNAs for HPCAL1 gene
Clone Products
- Sino Biological Human cDNA Clone for HPCAL1
- Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat
Cell Line Products
-
Horizon Cell Lines for HPCAL1
-
ViGene Biosciences adenoviral particle packaged cDNA for HPCAL1 gene
-
ViGene Biosciences lentiviral particle packaged cDNA for HPCAL1 gene
-
ViGene Biosciences ready-to-package AAV shRNAs for HPCAL1 gene
Flow Cytometry Products
No data available for Enzyme Numbers (IUBMB) , 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.
| Compartment | Confidence |
|---|---|
| extracellular | 5 |
| cytosol | 3 |
| nucleus | 2 |
| GO ID | Qualified GO term | Evidence | PubMed IDs |
|---|---|---|---|
| GO:0016020 | membrane | IEA | -- |
| GO:0070062 | extracellular exosome | IDA | 23376485 |
Pathways & Interactions for HPCAL1 Gene
| SuperPathway | Contained pathways | ||
|---|---|---|---|
| 1 | Visual Cycle in Retinal Rods | ||
Pathways by source for HPCAL1 Gene
1 Qiagen pathway for HPCAL1 Gene
Interacting Proteins for HPCAL1 Gene
Selected Interacting proteins:
ENSP00000310749
P37235-HPCL1_HUMAN
for HPCAL1 Gene via
STRING
IID
UniProtKB
No data available for SIGNOR curated interactions for HPCAL1 Gene
Drugs & Compounds for HPCAL1 Gene
| Name | Status | Disease Links | Group | Role | Mechanism of Action | Clinical Trials |
|---|---|---|---|---|---|---|
| calcium | Nutra | 0 |
Transcripts for HPCAL1 Gene
mRNA/cDNA for HPCAL1 Gene
- (17) REFSEQ mRNAs :
- (12) Additional mRNA sequences :
- (315) Selected AceView cDNA sequences:
- (8) Ensembl transcripts including schematic representations, and UCSC links where relevant :
CRISPR Products
-
OriGene CRISPR knockouts for HPCAL1
-
Santa Cruz Biotechnology (SCBT) CRISPR for HPCAL1
- GenScript: Design CRISPR guide RNA sequences for HPCAL1
miRNA Products
- Search ViGene Biosciences for HPCAL1
Inhibitory RNA Products
- Origene RNAi, siRNA, and shRNA products in human, mouse, rat for HPCAL1
- Browse OriGene Inhibitory RNA Products For HPCAL1
-
ViGene Biosciences ready-to-package AAV shRNAs for HPCAL1 gene
Clone Products
- Sino Biological Human cDNA Clone for HPCAL1
- Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat
Flow Cytometry Products
| ExUns: | 1a | · | 1b | ^ | 2 | ^ | 3 | ^ | 4a | · | 4b | ^ | 5 | ^ | 6 | ^ | 7 | ^ | 8a | · | 8b | ^ | 9 | ^ | 10a | · | 10b | ^ | 11 | ^ | 12 | ^ | 13a | · | 13b | · | 13c | · | 13d |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| SP1: | - | - | - | - | - | - | - | - | |||||||||||||||||||||||||||||||
| SP2: | - | - | - | - | - | - | - | - | - | ||||||||||||||||||||||||||||||
| SP3: | - | - | - | - | - | ||||||||||||||||||||||||||||||||||
| SP4: | |||||||||||||||||||||||||||||||||||||||
| SP5: | - | - | - | - | - | - | |||||||||||||||||||||||||||||||||
| SP6: | - | - | - | - | |||||||||||||||||||||||||||||||||||
| SP7: | |||||||||||||||||||||||||||||||||||||||
| SP8: | - | - | - | ||||||||||||||||||||||||||||||||||||
| SP9: | - | - |
Expression for HPCAL1 Gene
mRNA expression in embryonic tissues and stem cells from LifeMap Discovery
- Brain (Nervous System)
-
Eye (Sensory Organs)
- Cholinergic Amacrine Cells Inner Nuclear Layer
- Mature Rod Cells Outer Nuclear Layer
-
Neurons
- Cholinergic Amacrine Cells Inner Nuclear Layer
- Mature Rod Cells Outer Nuclear Layer
-
Lung (Respiratory System)
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).
This gene is overexpressed in Bone (21.3).
Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for HPCAL1 Gene
- Elite partner
NURSA nuclear receptor signaling pathways regulating expression of HPCAL1 Gene:
HPCAL1SOURCE GeneReport for Unigene cluster for HPCAL1 Gene:
Hs.580427Evidence on tissue expression from TISSUES for HPCAL1 Gene
- Nervous system(4.7)
- Liver(4.2)
- Pancreas(4.2)
Primer Products
-
OriGene qPCR primer pairs for HPCAL1
-
OriGene qPCR primer pairs and template standards for HPCAL1
No data available for mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for HPCAL1 Gene
Orthologs for HPCAL1 Gene
This gene was present in the common ancestor of animals.
| Organism | Taxonomy | Gene | Similarity | Type | Details |
|---|---|---|---|---|---|
| chimpanzee (Pan troglodytes) |
Mammalia | HPCAL1 34 35 |
|
||
| oppossum (Monodelphis domestica) |
Mammalia | HPCAL1 35 |
|
OneToOne | |
| dog (Canis familiaris) |
Mammalia | HPCAL1 34 35 |
|
||
| cow (Bos Taurus) |
Mammalia | HPCAL1 34 35 |
|
||
| rat (Rattus norvegicus) |
Mammalia | Hpcal1 34 |
|
||
| mouse (Mus musculus) |
Mammalia | Hpcal1 34 16 35 |
|
||
| platypus (Ornithorhynchus anatinus) |
Mammalia | HPCAL1 35 |
|
OneToOne | |
| chicken (Gallus gallus) |
Aves | HPCAL1 34 35 |
|
||
| lizard (Anolis carolinensis) |
Reptilia | HPCAL1 35 |
|
OneToOne | |
| tropical clawed frog (Silurana tropicalis) |
Amphibia | hpcal1 34 |
|
||
| zebrafish (Danio rerio) |
Actinopterygii | HPCAL1 35 |
|
OneToOne | |
| zgc:63695 34 |
|
||||
| zgc73126 34 |
|
||||
| African malaria mosquito (Anopheles gambiae) |
Insecta | AgaP_AGAP007247 34 |
|
||
| fruit fly (Drosophila melanogaster) |
Insecta | Nca 36 34 |
|
||
| CG5744 36 |
|
|
|||
| Frq 36 |
|
|
|||
| CG7646 36 |
|
|
|||
| worm (Caenorhabditis elegans) |
Secernentea | ncs-3 36 |
|
|
|
| ncs-2 36 |
|
|
|||
| sea squirt (Ciona savignyi) |
Ascidiacea | -- 35 |
|
OneToMany |
- Species where no ortholog for HPCAL1 was found in the sources mined by GeneCards:
-
- 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)
Paralogs for HPCAL1 Gene
Paralogs for HPCAL1 Gene
(24) SIMAP similar genes for HPCAL1 Gene using alignment to 5 proteins:
Variants for HPCAL1 Gene
| SNP ID | Clin | Chr 02 pos | Sequence Context | AA Info | Type |
|---|---|---|---|---|---|
| rs1000024924 | -- | 10,419,555(+) | TAATT(-/AG)AGTCT | intron-variant | |
| rs1000047474 | -- | 10,410,921(+) | GCATG(C/G)AGCAT | intron-variant | |
| rs1000048108 | -- | 10,338,826(+) | TGGAG(G/T)CAGCC | intron-variant | |
| rs1000075751 | -- | 10,300,967(+) | AGGGA(C/T)GCAAG | nc-transcript-variant, upstream-variant-2KB | |
| rs1000086534 | -- | 10,353,608(+) | TCTCA(C/T)CCAGG | intron-variant |
| Variant ID | Type | Subtype | PubMed ID |
|---|---|---|---|
| dgv587e201 | CNV | deletion | 23290073 |
| dgv679e199 | CNV | deletion | 23128226 |
| esv1007136 | CNV | insertion | 20482838 |
| esv2719644 | CNV | deletion | 23290073 |
| esv2719646 | CNV | deletion | 23290073 |
| esv2719648 | CNV | deletion | 23290073 |
| esv2719650 | CNV | deletion | 23290073 |
| esv27364 | CNV | loss | 19812545 |
| esv3395574 | CNV | duplication | 20981092 |
| esv3446200 | CNV | insertion | 20981092 |
| esv3589797 | CNV | loss | 21293372 |
| esv3589798 | CNV | loss | 21293372 |
| nsv1007185 | CNV | gain | 25217958 |
| nsv1071973 | CNV | deletion | 25765185 |
| nsv1077349 | CNV | duplication | 25765185 |
| nsv2605 | CNV | insertion | 18451855 |
| nsv508827 | CNV | insertion | 20534489 |
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)
Relevant External Links for HPCAL1 Gene
- SNPedia medical, phenotypic, and genealogical associations of SNPs for
- HPCAL1
No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for HPCAL1 Gene
Disorders for HPCAL1 Gene
Relevant External Links for HPCAL1
No disorders were found for HPCAL1 Gene.
No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for HPCAL1 Gene
Publications for HPCAL1 Gene
- Hypertension susceptibility genes on chromosome 2p24-p25 in a general Japanese population. (PMID: 15834280) Kamide K. … Miyata T. (J. Hypertens. 2005) 3 22 46 64
- 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 64
- 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 22 64
- 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 64
- The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard D.S. … Malek J. (Genome Res. 2004) 3 4 64
Products for HPCAL1 Gene
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- antibodies-online Antibodies for HPCAL1: See all 23
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- ViGene Biosciences adenoviral particle packaged cDNA for HPCAL1 gene
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- VectorBuilder custom plasmid, inducible vectors for HPCAL1
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- VectorBuilder Other custom vectors
- Mammalian expression: PiggyBac
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- CRISPR: plasmid gRNA, lentiviral gRNA, and donor plasmid
- Bacterial expression: pET, pBAD, and pCS
- Yeast expression
Sources for HPCAL1 Gene
- (1) GeneCards
- (2) HGNC
- (3) EntrezGene
- (4) Swiss-Prot
- (5) Ensembl
- (6) OMIM
- (7) GeneLoc
- (8) Gene Wiki
- (9) UCSC
- (10) PhosphoSitePlus
- (11) GO
- (12) TrEMBL
- (13) InterPro
- (14) ProtoNet
- (15) Blocks
- (16) MGI
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- (18) KEGG
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- (22) Novoseek
- (23) PharmGKB
- (24) DrugBank
- (25) HMDB
- (26) UniGene
- (27) AceView
- (28) RNAdb
- (29) ASD
- (30) ECgene
- (31) GeneAnnot
- (32) CGAP SAGE
- (33) SOURCE
- (34) HomoloGene
- (35) PanEnsembl
- (36) euGenes
- (37) SGD
- (38) FlyBase
- (39) WormBase
- (40) Pseudogene
- (41) DGV
- (42) dbSNP
- (43) GenAtlas
- (44) GeneTests
- (45) HGMD
- (46) GAD
- (47) LSDB
- (48) BGMUT
- (49) HuGE
- (50) eBioscience
- (51) Atlas
- (52) Cell Signaling Technology
- (53) GenBank
- (54) H-invDB
- (55) HORDE
- (56) HUGE
- (57) IMGT
- (58) Leiden
- (59) MILLIPORE
- (60) miRBase
- (61) DME
- (62) NCBI
- (63) OriGene
- (64) PubMed
- (65) R&D Systems
- (66) TGDB
- (67) Tocris
- (68) Abcam
- (69) Novus
- (70) ProSpec
- (71) Sino Biological
- (72) GenScript
- (73) Qiagen
- (74) Cloud-Clone Corp.
- (75) Enzo Life Sciences
- (76) OCA
- (77) Proteopedia
- (78) MOPED
- (79) SPIRE
- (80) neXtProt
- (81) Reactome
- (82) GeneGo (Thomson Reuters)
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- (125) UMLS
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- (127) Disease Ontology
- (128) Genetics Home Reference
- (129) MeSH
- (130) MedlinePlus
- (131) CDC
- (132) NINDS
- (133) NCBI Bookshelf
- (134) ClinVar
- (135) Gene Damage Index
- (136) ViGene Biosciences
- (137) HPO
- (138) UDN
- (139) VISTA
- (140) FANTOM5
- (141) ENCODE
- (142) ProSci
- (143) Horizon
- (144) NURSA
- (145) IID
- (146) Cyagen
- (147) VectorBuilder
- (148) SNPedia
- (149) BRCA Exchange
- (150) St John's Lab
- (151) CIViC
- (152) ProteoGenix
- (153) dbSUPER
- (154) TISSUES
- (155) Gene ORGANizer