Human Gene CASQ2 (ENST00000261448.6_7) from GENCODE V47lift37
  Description: calsequestrin 2 (from RefSeq NM_001232.4)
Gencode Transcript: ENST00000261448.6_7
Gencode Gene: ENSG00000118729.15_9
Transcript (Including UTRs)
   Position: hg19 chr1:116,242,642-116,311,335 Size: 68,694 Total Exon Count: 11 Strand: -
Coding Region
   Position: hg19 chr1:116,243,862-116,311,162 Size: 67,301 Coding Exon Count: 11 

Page IndexSequence and LinksUniProtKB CommentsPrimersMalaCardsCTD
Gene AllelesRNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther Species
GO AnnotationsmRNA DescriptionsOther NamesGeneReviewsModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr1:116,242,642-116,311,335)mRNA (may differ from genome)Protein (399 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
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UniProtKBBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: CASQ2_HUMAN
DESCRIPTION: RecName: Full=Calsequestrin-2; AltName: Full=Calsequestrin, cardiac muscle isoform; Flags: Precursor;
FUNCTION: Calsequestrin is a high-capacity, moderate affinity, calcium-binding protein and thus acts as an internal calcium store in muscle. The release of calcium bound to calsequestrin through a calcium release channel triggers muscle contraction. The skeletal muscle isoform (CASQ1) binds around 80 Ca(2+) ions, while the cardiac isoform (CASQ2) binds approximately 60 Ca(2+) ions.
SUBUNIT: Monomer, homodimer and homooligomer. Mostly monomeric in the absence of calcium. Forms higher oligomers in a calcium- dependent manner. Dimers associate to form tetramers, that then form linear homopolymer chains.
SUBCELLULAR LOCATION: Sarcoplasmic reticulum lumen. Note=This isoform of calsequestrin occurs in the sarcoplasmic reticulum's terminal cisternae luminal spaces of cardiac and slow skeletal muscle cells.
PTM: Phosphorylation in the C-terminus, probably by CK2, moderately increases calcium buffering capacity.
DISEASE: Defects in CASQ2 are the cause of catecholaminergic polymorphic ventricular tachycardia type 2 (CPVT2) [MIM:611938]; also known as stress-induced polymorphic ventricular tachycardia (VTSIP). CPVT2 is an autosomal recessive form of arrhythmogenic disorder characterized by stress-induced, bidirectional ventricular tachycardia that may degenerate into cardiac arrest and cause sudden death.
SIMILARITY: Belongs to the calsequestrin family.
WEB RESOURCE: Name=GeneReviews; URL="http://www.ncbi.nlm.nih.gov/sites/GeneTests/lab/gene/CASQ2";
WEB RESOURCE: Name=Wikipedia; Note=Calsequestrin entry; URL="http://en.wikipedia.org/wiki/Calsequestrin";

-  Primer design for this transcript
 

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


-  MalaCards Disease Associations
  MalaCards Gene Search: CASQ2
Diseases sorted by gene-association score: ventricular tachycardia, catecholaminergic polymorphic, 2* (1231), catecholaminergic polymorphic ventricular tachycardia* (463), casq2-related catecholaminergic polymorphic ventricular tachycardia* (100), cardiac arrest (43), ventricular tachycardia, catecholaminergic polymorphic, 1 (11), arrhythmogenic right ventricular dysplasia 2 (7), heart conduction disease (6), strabismus (5), long qt syndrome 6 (5), long qt syndrome 5 (5), long qt syndrome 1 (1)
* = Manually curated disease association

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene           more ... click here to view the complete list

+  Common Gene Haplotype Alleles
  Press "+" in the title bar above to open this section.

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 331.08 RPKM in Heart - Left Ventricle
Total median expression: 1109.35 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
  Press "+" in the title bar above to open this section.

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -48.30173-0.279 Picture PostScript Text
3' UTR -325.601220-0.267 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR001393 - Calsequestrin
IPR018233 - Calsequestrin_CS
IPR012336 - Thioredoxin-like_fold

Pfam Domains:
PF01216 - Calsequestrin
PF13848 - Thioredoxin-like domain

SCOP Domains:
52833 - Thioredoxin-like

Protein Data Bank (PDB) 3-D Structure
MuPIT help
2VAF - X-ray MuPIT


ModBase Predicted Comparative 3D Structure on O14958
FrontTopSide
The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
No orthologNo orthologNo orthologNo orthologNo orthologNo ortholog
Gene DetailsGene Details    
Gene SorterGene Sorter    
 RGDEnsembl   
      
      

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0005509 calcium ion binding
GO:0005515 protein binding
GO:0042803 protein homodimerization activity
GO:0046872 metal ion binding
GO:0048306 calcium-dependent protein binding

Biological Process:
GO:0002027 regulation of heart rate
GO:0005513 detection of calcium ion
GO:0006941 striated muscle contraction
GO:0010649 regulation of cell communication by electrical coupling
GO:0010880 regulation of release of sequestered calcium ion into cytosol by sarcoplasmic reticulum
GO:0010881 regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion
GO:0034220 ion transmembrane transport
GO:0043267 negative regulation of potassium ion transport
GO:0045214 sarcomere organization
GO:0051208 sequestering of calcium ion
GO:0051258 protein polymerization
GO:0060048 cardiac muscle contraction
GO:0060306 regulation of membrane repolarization
GO:0060315 negative regulation of ryanodine-sensitive calcium-release channel activity
GO:0071313 cellular response to caffeine
GO:0086029 Purkinje myocyte to ventricular cardiac muscle cell signaling
GO:1901017 negative regulation of potassium ion transmembrane transporter activity
GO:1903779 regulation of cardiac conduction

Cellular Component:
GO:0005622 intracellular
GO:0005737 cytoplasm
GO:0014701 junctional sarcoplasmic reticulum membrane
GO:0016529 sarcoplasmic reticulum
GO:0030018 Z disc
GO:0030314 junctional membrane complex
GO:0033017 sarcoplasmic reticulum membrane
GO:0033018 sarcoplasmic reticulum lumen
GO:0034704 calcium channel complex
GO:0005891 voltage-gated calcium channel complex


-  Descriptions from all associated GenBank mRNAs
  AK129891 - Homo sapiens cDNA FLJ26381 fis, clone HRT06737, highly similar to Calsequestrin, cardiac muscle isoform precursor.
BC022288 - Homo sapiens calsequestrin 2 (cardiac muscle), mRNA (cDNA clone MGC:22461 IMAGE:4289141), complete cds.
D55655 - Homo sapiens mRNA for cardiac calsequestrin, complete cds.
AK295502 - Homo sapiens cDNA FLJ52966 complete cds, moderately similar to Calsequestrin-2 precursor.
AK225959 - Homo sapiens mRNA for Calsequestrin, cardiac muscle isoform precursor variant, clone: FCC114E01.
AK293595 - Homo sapiens cDNA FLJ56025 complete cds, highly similar to Calsequestrin-2 precursor.
KJ896544 - Synthetic construct Homo sapiens clone ccsbBroadEn_05938 CASQ2 gene, encodes complete protein.
KR711194 - Synthetic construct Homo sapiens clone CCSBHm_00021037 CASQ2 (CASQ2) mRNA, encodes complete protein.
KR711195 - Synthetic construct Homo sapiens clone CCSBHm_00021038 CASQ2 (CASQ2) mRNA, encodes complete protein.
KR711196 - Synthetic construct Homo sapiens clone CCSBHm_00021042 CASQ2 (CASQ2) mRNA, encodes complete protein.
DQ893219 - Synthetic construct clone IMAGE:100005849; FLH195346.01X; RZPDo839B05152D calsequestrin 2 (cardiac muscle) (CASQ2) gene, encodes complete protein.
AK313041 - Homo sapiens cDNA, FLJ93514, highly similar to Homo sapiens calsequestrin 2 (cardiac muscle) (CASQ2), mRNA.
DQ896548 - Synthetic construct Homo sapiens clone IMAGE:100011008; FLH195342.01L; RZPDo839B05151D calsequestrin 2 (cardiac muscle) (CASQ2) gene, encodes complete protein.
CU692536 - Synthetic construct Homo sapiens gateway clone IMAGE:100022292 5' read CASQ2 mRNA.
LF205105 - JP 2014500723-A/12608: Polycomb-Associated Non-Coding RNAs.
AK129831 - Homo sapiens cDNA FLJ26321 fis, clone HRT00385, highly similar to Homo sapiens calsequestrin 2 (cardiac muscle) (CASQ2).
JD302801 - Sequence 283825 from Patent EP1572962.
JD538745 - Sequence 519769 from Patent EP1572962.
JD267561 - Sequence 248585 from Patent EP1572962.
JD234702 - Sequence 215726 from Patent EP1572962.
JD507611 - Sequence 488635 from Patent EP1572962.
JD315150 - Sequence 296174 from Patent EP1572962.
JD168746 - Sequence 149770 from Patent EP1572962.
JD061117 - Sequence 42141 from Patent EP1572962.
JD464871 - Sequence 445895 from Patent EP1572962.
JD371584 - Sequence 352608 from Patent EP1572962.
JD358475 - Sequence 339499 from Patent EP1572962.
JD316005 - Sequence 297029 from Patent EP1572962.
JD120787 - Sequence 101811 from Patent EP1572962.
MA440682 - JP 2018138019-A/12608: Polycomb-Associated Non-Coding RNAs.
JD320557 - Sequence 301581 from Patent EP1572962.
JD538834 - Sequence 519858 from Patent EP1572962.
JD106132 - Sequence 87156 from Patent EP1572962.
JD301370 - Sequence 282394 from Patent EP1572962.
JD302761 - Sequence 283785 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: B2R7M6, B4DIB0, CASQ2_HUMAN, ENST00000261448.1, ENST00000261448.2, ENST00000261448.3, ENST00000261448.4, ENST00000261448.5, NM_001232, O14958, Q5T1D2, Q8TBW8, uc317gqc.1, uc317gqc.2
UCSC ID: ENST00000261448.6_7
RefSeq Accession: NM_001232.4
Protein: O14958 (aka CASQ2_HUMAN or CAQ2_HUMAN)

-  GeneReviews for This Gene
  GeneReviews article(s) related to gene CASQ2:
cvt (Catecholaminergic Polymorphic Ventricular Tachycardia)

-  Gene Model Information
  Click here for a detailed description of the fields of the table above.

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.