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HPCAL1 hippocalcin like 1 [ Homo sapiens (human) ]

Gene ID: 3241, updated on 7-Dec-2018

Summary

Official Symbol
HPCAL1provided by HGNC
Official Full Name
hippocalcin like 1provided by HGNC
Primary source
HGNC:HGNC:5145
See related
Ensembl:ENSG00000115756 MIM:600207
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
BDR1; HLP2; VILIP-3
Summary
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]
Expression
Ubiquitous expression in lung (RPKM 11.7), small intestine (RPKM 9.0) and 25 other tissues See more
Orthologs

Genomic context

See HPCAL1 in Genome Data Viewer
Location:
2p25.1
Exon count:
17
Annotation release Status Assembly Chr Location
109 current GRCh38.p12 (GCF_000001405.38) 2 NC_000002.12 (10302124..10427617)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 2 NC_000002.11 (10443015..10567743)

Chromosome 2 - NC_000002.12Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC101929691 Neighboring gene RNA, 7SL, cytoplasmic 66, pseudogene Neighboring gene small nucleolar RNA, H/ACA box 80B Neighboring gene ornithine decarboxylase 1 Neighboring gene ODC1 divergent transcript

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
calcium ion binding IEA
Inferred from Electronic Annotation
more info
 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
Component Evidence Code Pubs
membrane IEA
Inferred from Electronic Annotation
more info
 

General protein information

Preferred Names
hippocalcin-like protein 1
Names
calcium-binding protein BDR-1
visinin-like protein 3

NCBI Reference Sequences (RefSeq)

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_001258357.1NP_001245286.1  hippocalcin-like protein 1

    See identical proteins and their annotated locations for NP_001245286.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) differs in the 5' UTR compared to variant 5. All five variants encode the same protein.
    Source sequence(s)
    AC007249, AF070616, BC017482, BU145561
    Consensus CDS
    CCDS1671.1
    UniProtKB/Swiss-Prot
    P37235
    UniProtKB/TrEMBL
    O75544, Q6FGY1
    Related
    ENSP00000482993.1, ENST00000622018.4
    Conserved Domains (3) summary
    COG5126
    Location:13179
    FRQ1; Ca2+-binding protein, EF-hand superfamily [Signal transduction mechanisms]
    cd00051
    Location:65126
    EFh; EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to ...
    pfam13833
    Location:3986
    EF-hand_8; EF-hand domain pair
  2. NM_001258358.1NP_001245287.1  hippocalcin-like protein 1

    See identical proteins and their annotated locations for NP_001245287.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (4) differs in the 5' UTR compared to variant 5. All five variants encode the same protein.
    Source sequence(s)
    AC007249, AF070616, BC017482, BI601950
    Consensus CDS
    CCDS1671.1
    UniProtKB/Swiss-Prot
    P37235
    UniProtKB/TrEMBL
    O75544, Q6FGY1
    Related
    ENSP00000478231.1, ENST00000613496.4
    Conserved Domains (3) summary
    COG5126
    Location:13179
    FRQ1; Ca2+-binding protein, EF-hand superfamily [Signal transduction mechanisms]
    cd00051
    Location:65126
    EFh; EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to ...
    pfam13833
    Location:3986
    EF-hand_8; EF-hand domain pair
  3. NM_001258359.1NP_001245288.1  hippocalcin-like protein 1

    See identical proteins and their annotated locations for NP_001245288.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (5) represents the longest transcript. All five variants encode the same protein.
    Source sequence(s)
    AC007249, AF070616, AK292280, BC017482
    Consensus CDS
    CCDS1671.1
    UniProtKB/Swiss-Prot
    P37235
    UniProtKB/TrEMBL
    O75544, Q6FGY1
    Related
    ENSP00000483786.1, ENST00000620771.4
    Conserved Domains (3) summary
    COG5126
    Location:13179
    FRQ1; Ca2+-binding protein, EF-hand superfamily [Signal transduction mechanisms]
    cd00051
    Location:65126
    EFh; EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to ...
    pfam13833
    Location:3986
    EF-hand_8; EF-hand domain pair
  4. NM_002149.4NP_002140.2  hippocalcin-like protein 1

    See identical proteins and their annotated locations for NP_002140.2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) differs in the 5' UTR compared to variant 5. All five variants encode the same protein.
    Source sequence(s)
    AC007249, AF070616, BC017482, BI603158
    Consensus CDS
    CCDS1671.1
    UniProtKB/Swiss-Prot
    P37235
    UniProtKB/TrEMBL
    O75544, Q6FGY1
    Related
    ENSP00000310749.3, ENST00000307845.7
    Conserved Domains (3) summary
    COG5126
    Location:13179
    FRQ1; Ca2+-binding protein, EF-hand superfamily [Signal transduction mechanisms]
    cd00051
    Location:65126
    EFh; EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to ...
    pfam13833
    Location:3986
    EF-hand_8; EF-hand domain pair
  5. NM_134421.2NP_602293.1  hippocalcin-like protein 1

    See identical proteins and their annotated locations for NP_602293.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) differs in the 5' UTR compared to variant 5. All five variants encode the same protein.
    Source sequence(s)
    AC007240, AC007249, AF070616, AK000596
    Consensus CDS
    CCDS1671.1
    UniProtKB/Swiss-Prot
    P37235
    UniProtKB/TrEMBL
    O75544, Q6FGY1
    Related
    ENSP00000371184.3, ENST00000381765.7
    Conserved Domains (3) summary
    COG5126
    Location:13179
    FRQ1; Ca2+-binding protein, EF-hand superfamily [Signal transduction mechanisms]
    cd00051
    Location:65126
    EFh; EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to ...
    pfam13833
    Location:3986
    EF-hand_8; EF-hand domain pair

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 109

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

Reference GRCh38.p12 Primary Assembly

Genomic

  1. NC_000002.12 Reference GRCh38.p12 Primary Assembly

    Range
    10302124..10427617
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_017003952.1XP_016859441.1  hippocalcin-like protein 1 isoform X1

    UniProtKB/Swiss-Prot
    P37235
    UniProtKB/TrEMBL
    Q6FGY1
    Conserved Domains (3) summary
    COG5126
    Location:13179
    FRQ1; Ca2+-binding protein, EF-hand superfamily [Signal transduction mechanisms]
    cd00051
    Location:65126
    EFh; EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to ...
    pfam13833
    Location:3986
    EF-hand_8; EF-hand domain pair
  2. XM_011510349.2XP_011508651.1  hippocalcin-like protein 1 isoform X2

    See identical proteins and their annotated locations for XP_011508651.1

    Conserved Domains (3) summary
    cd00051
    Location:65126
    EFh; EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to ...
    pfam13499
    Location:68125
    EF-hand_7; EF-hand domain pair
    pfam13833
    Location:3986
    EF-hand_8; EF-hand domain pair
  3. XM_017003950.1XP_016859439.1  hippocalcin-like protein 1 isoform X1

    UniProtKB/Swiss-Prot
    P37235
    UniProtKB/TrEMBL
    Q6FGY1
    Conserved Domains (3) summary
    COG5126
    Location:13179
    FRQ1; Ca2+-binding protein, EF-hand superfamily [Signal transduction mechanisms]
    cd00051
    Location:65126
    EFh; EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to ...
    pfam13833
    Location:3986
    EF-hand_8; EF-hand domain pair
  4. XM_017003951.1XP_016859440.1  hippocalcin-like protein 1 isoform X1

    UniProtKB/Swiss-Prot
    P37235
    UniProtKB/TrEMBL
    Q6FGY1
    Conserved Domains (3) summary
    COG5126
    Location:13179
    FRQ1; Ca2+-binding protein, EF-hand superfamily [Signal transduction mechanisms]
    cd00051
    Location:65126
    EFh; EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to ...
    pfam13833
    Location:3986
    EF-hand_8; EF-hand domain pair
  5. XM_005246163.1XP_005246220.1  hippocalcin-like protein 1 isoform X1

    See identical proteins and their annotated locations for XP_005246220.1

    UniProtKB/Swiss-Prot
    P37235
    UniProtKB/TrEMBL
    Q6FGY1
    Conserved Domains (3) summary
    COG5126
    Location:13179
    FRQ1; Ca2+-binding protein, EF-hand superfamily [Signal transduction mechanisms]
    cd00051
    Location:65126
    EFh; EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to ...
    pfam13833
    Location:3986
    EF-hand_8; EF-hand domain pair
  6. XM_005246160.1XP_005246217.1  hippocalcin-like protein 1 isoform X1

    See identical proteins and their annotated locations for XP_005246217.1

    UniProtKB/Swiss-Prot
    P37235
    UniProtKB/TrEMBL
    Q6FGY1
    Conserved Domains (3) summary
    COG5126
    Location:13179
    FRQ1; Ca2+-binding protein, EF-hand superfamily [Signal transduction mechanisms]
    cd00051
    Location:65126
    EFh; EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to ...
    pfam13833
    Location:3986
    EF-hand_8; EF-hand domain pair
  7. XM_011510347.1XP_011508649.1  hippocalcin-like protein 1 isoform X1

    See identical proteins and their annotated locations for XP_011508649.1

    UniProtKB/Swiss-Prot
    P37235
    UniProtKB/TrEMBL
    Q6FGY1
    Conserved Domains (3) summary
    COG5126
    Location:13179
    FRQ1; Ca2+-binding protein, EF-hand superfamily [Signal transduction mechanisms]
    cd00051
    Location:65126
    EFh; EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to ...
    pfam13833
    Location:3986
    EF-hand_8; EF-hand domain pair
  8. XM_005246162.1XP_005246219.1  hippocalcin-like protein 1 isoform X1

    See identical proteins and their annotated locations for XP_005246219.1

    UniProtKB/Swiss-Prot
    P37235
    UniProtKB/TrEMBL
    Q6FGY1
    Conserved Domains (3) summary
    COG5126
    Location:13179
    FRQ1; Ca2+-binding protein, EF-hand superfamily [Signal transduction mechanisms]
    cd00051
    Location:65126
    EFh; EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to ...
    pfam13833
    Location:3986
    EF-hand_8; EF-hand domain pair
  9. XM_005246161.1XP_005246218.1  hippocalcin-like protein 1 isoform X1

    See identical proteins and their annotated locations for XP_005246218.1

    UniProtKB/Swiss-Prot
    P37235
    UniProtKB/TrEMBL
    Q6FGY1
    Conserved Domains (3) summary
    COG5126
    Location:13179
    FRQ1; Ca2+-binding protein, EF-hand superfamily [Signal transduction mechanisms]
    cd00051
    Location:65126
    EFh; EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to ...
    pfam13833
    Location:3986
    EF-hand_8; EF-hand domain pair
  10. XM_011510348.1XP_011508650.1  hippocalcin-like protein 1 isoform X1

    See identical proteins and their annotated locations for XP_011508650.1

    UniProtKB/Swiss-Prot
    P37235
    UniProtKB/TrEMBL
    Q6FGY1
    Conserved Domains (3) summary
    COG5126
    Location:13179
    FRQ1; Ca2+-binding protein, EF-hand superfamily [Signal transduction mechanisms]
    cd00051
    Location:65126
    EFh; EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to ...
    pfam13833
    Location:3986
    EF-hand_8; EF-hand domain pair
  11. XM_017003953.2XP_016859442.1  hippocalcin-like protein 1 isoform X1

    UniProtKB/Swiss-Prot
    P37235
    UniProtKB/TrEMBL
    Q6FGY1
    Conserved Domains (3) summary
    COG5126
    Location:13179
    FRQ1; Ca2+-binding protein, EF-hand superfamily [Signal transduction mechanisms]
    cd00051
    Location:65126
    EFh; EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to ...
    pfam13833
    Location:3986
    EF-hand_8; EF-hand domain pair
  12. XM_011510346.2XP_011508648.1  hippocalcin-like protein 1 isoform X1

    See identical proteins and their annotated locations for XP_011508648.1

    UniProtKB/Swiss-Prot
    P37235
    UniProtKB/TrEMBL
    Q6FGY1
    Conserved Domains (3) summary
    COG5126
    Location:13179
    FRQ1; Ca2+-binding protein, EF-hand superfamily [Signal transduction mechanisms]
    cd00051
    Location:65126
    EFh; EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to ...
    pfam13833
    Location:3986
    EF-hand_8; EF-hand domain pair
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