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TRPC2 Gene

pseudogene   GIFtS: 34
GCID: GC11P003604

Transient Receptor Potential Cation Channel, Subfamily C,...

(Previous names: transient receptor potential cation channel, subfamily C,...)
  Search for TRPC2
at  

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, 10fRNAdb, 12H-InvDB, 13NCBI, 14NONCODE, and/or 15RNAdb)
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This gene clusters with an RNA gene
Subcategory (RNA class): lncRNA

Quality score for the ORGUL clustered with this gene is 5

Aliases
Transient Receptor Potential Cation Channel, Subfamily C, Member 2,
Pseudogene1 2
Transient Receptor Potential Cation Channel, Subfamily C, Member 21

External Ids:    HGNC: 123341   Entrez Gene: 72212   Ensembl: ENSG000001820487   
ORGUL members:    fRNAdb10:FR368334      
NCBI13:XR_000147    
NONCODE14:n381599 n381598    
RNAdb15:LIT2049    

Export aliases for TRPC2 gene to outside databases

Previous GC identifers: GC11P004223 GC11U900038 GC11P003607 GC11P003601 GC11P003611 GC11P003385


(According to Entrez Gene, GeneCards, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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GeneCards Summary for TRPC2 Gene:
TRPC2 (transient receptor potential cation channel, subfamily C, member 2, pseudogene) is a pseudogene, and is affiliated with the lncRNA class.

Gene Wiki entry for TRPC2 Gene

fRNAdb sequence ontology for TRPC2:
mature_transcript - A transcript which has undergone the necessary modifications, if any, for its function. In eukaryotes this includes, for example, processing of introns, cleavage, base modification, and modifications to the 5' and/or the 3' ends, other than addition of bases. In bacteria functional mRNAs are usually not modified.

(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 37),
and/or miRBase,
Genomic Views according to UCSC (hg19) and Ensembl (release 75), Regulatory elements and Epigenetics data according to QIAGEN, and/or SwitchGear Genomics)
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RefSeq DNA sequence:
NC_000011.10  NC_018922.2  NT_009237.19  
Regulatory elements:
   Regulatory transcription factor binding sites in the TRPC2 gene promoter:
         c-Fos   AhR   ER-alpha   ISGF-3   AP-1   JunB   Fra-1   FosB   JunD   c-Jun   
         Other transcription factors

Browse SwitchGear Promoter luciferase reporter plasmids
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Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat TRPC2


Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track

Entrez Gene cytogenetic band: 11p15.4   Ensembl cytogenetic band:  11p15.4   HGNC cytogenetic band: 11p15.4

TRPC2 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
TRPC2 gene location

GeneLoc information about chromosome 11         GeneLoc Exon Structure

GeneLoc location for GC11P003604:  view genomic region     (about GC identifiers)

Start:
3,631,131 bp from pter      End:
3,658,789 bp from pter
Size:
27,659 bases      Orientation:
plus strand
ORGUL member locations:
Legend (see complete legend)

ORGUL Member Locations for TRPC2

(According to 1UniProtKB, HORDE, 2neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from EMD Millipore, R&D Systems, GenScript, Enzo Life Sciences, OriGene, Novus Biologicals, Sino Biological, ProSpec, and/or Cloud-Clone Corp.,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Cloud-Clone Corp., Antibodies by EMD Millipore, R&D Systems, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, and/or Cloud-Clone Corp.)
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UniProtKB: --


(According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
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HGNC Gene Families:
TRP: Voltage-gated ion channels / Transient receptor potential cation channels

IUPHAR Guide to PHARMACOLOGY protein family classification: TRPC2
Transient Receptor Potential channels

  --

(According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, inGenious Targeting Laboratory, genOway,
transcription factor targeting from QIAGEN and/or HOMER, miRNA Gene Targets from miRTarBase, shRNA from OriGene, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, SwitchGear Genomics, Gene Editing from DNA2.0, Clones from OriGene, GenScript, Sino Biological, DNA2.0, and Vector BioLabs, Cell Lines from GenScript, ESI BIO, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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Molecular Function:
     Genatlas biochemistry entry for TRPC2:
transient receptor potential non voltage-channel 2,Drosophila store-operated channel (Soc) homolog,ubiquitous
predominantly expressed in fetal brain,adult heart,brain,testis,ovaries,activated by calcium store depletion,
component of the capacitative calcium entry,channels (homo or heterotetramer),may be a pseudogene

Phenotypes:
     6 MGI mutant phenotypes (inferred from 3 alleles(MGI details for Trpc2):
 behavior/neurological  craniofacial  hematopoietic system  homeostasis/metabolism  nervous system 
 respiratory system 

TRPC2 for phenotypes           About GeneDecksing

Animal Models:
     MGI mouse knock-outs for TRPC2: Trpc2tm1Dlc Trpc2tm1Rax

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(According to UniProtKB, COMPARTMENTS Subcellular localization database, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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(SuperPaths according to PathCards, Pathways according to R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Sino Biological, Reactome, Tocris Bioscience, GeneGo (Thomson Reuters), QIAGEN, and/or UniProtKB, Sets of similar genes according to GeneDecks, Interaction Networks according to QIAGEN, and/or STRING, Interactions according to 1UniProtKB, 2MINT, 3I2D, and/or 4STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene).
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SuperPaths for TRPC2 About                                                                                                See pathways by source

SuperPathContained pathways About
1CREB Pathway
Intracellular Calcium Signaling0.50
2Calcium channels
Calcium channels

1 Downloadable PowerPoint Slide of GeneGlobe Pathway Central Maps for TRPC2
    Intracellular Calcium Signaling


    Custom Pathway & Disease-focused RT2 Profiler PCR Arrays for TRPC2
Interactions:

    GeneGlobe Interaction Network for TRPC2

(Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience, ApexBio, HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB)
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Browse Small Molecules at EMD Millipore
   Browse drugs & compounds from Enzo Life Sciences
  Browse compounds at ApexBio 

Browse Tocris compounds for TRPC2



(Secondary structures according to fRNAdb,
GenBank/EMBL/DDBJ Accessions according to
Unigene (Build 236 Homo sapiens; Apr 25 2013) or GenBank,
RefSeq according to Entrez Gene,
DOTS (version 10), and/or AceView, transcript ids from Ensembl with links to UCSC,
Conferences by KenesGroup, exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN, SwitchGear Genomics,
Tagged/untagged cDNA clones from OriGene, GenScript, DNA2.0, Vector BioLabs, Primers from OriGene, and/or QIAGEN )
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Unigene Cluster for TRPC2:

Transient receptor potential cation channel, subfamily C, member 2, pseudogene
Hs.131910  [show with all ESTs]
Unigene Representative Sequence: NR_002720
3 Ensembl transcripts including schematic representations, and UCSC links where relevant:
ENST00000451043 ENST00000526541(uc001lya.1) ENST00000399582(uc001lxz.1)

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Additional mRNA sequence: 

NR_002720.2 X89067.1 

3 DOTS entries:

DT.208208  DT.120678536  DT.92047203 

8 AceView cDNA sequences:

X89067 BX097810 AA423920 AI769824 AI016598 AA423856 H61599 AI313316 

GeneLoc Exon Structure


(RNA expression data according to H-InvDB, NONCODE, miRBase, and RNAdb, Expression images according to data from BioGPS, Illumina Human BodyMap, and CGAP SAGE, Sets of similar genes according to GeneDecks, in vivo and in vitro expression data from LifeMap Discovery™, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MaxQB, plus additional links to SOURCE, and/or BioGPS, and/or UniProtKB,
PCR Arrays from QIAGEN, Primers from OriGene, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
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TRPC2 expression in normal human tissues (normalized intensities)      TRPC2 embryonic expression: see
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS <intensity>2/3
CGAP TAG: ATTTGTGTCA
TRPC2 Expression
About this image


TRPC2 expression in embryonic tissues and stem cells    About this table
Data from LifeMap, the Embryonic Development and Stem Cells Database
 
 Heart (Cardiovascular System)    fully expand to see all 2 entries
         Primitive Heart Tube Cells Primitive Heart Tube
         Heart Tube
TRPC2 Protein expression data from MOPED1, PaxDb2 and MaxQB3 --

SOURCE GeneReport for Unigene cluster: Hs.131910
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(Orthologs according to 1,2HomoloGene (2older version, for species not in 1newer version), 3euGenes, 4SGD , 5MGI Mar 06 2013, with possible further links to Flybase and/or WormBase, and/or 6Ensembl pan taxonomic compara , Gene Trees according to Ensembl and TreeFam)
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This gene was present in the common ancestor of human and mouse.

Orthologs for TRPC2 gene from 1 species (see representative species )    About this table
Organism Taxonomic
classification
Gene Description Human
Similarity
Orthology
Type
Details
mouse
(Mus musculus)
Mammalia Trpc25 transient receptor potential cation channel, subfamily more   --   7 (54.71 cM) 102065511 


ENSEMBL Gene Tree for TRPC2 (if available)
TreeFam Gene Tree for TRPC2 (if available)

(Paralogs according to 1HomoloGene,
2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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  --

(SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, 4UniProtKB, and DNA2.0, Linkage Disequilibrium by HapMap, Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Mutations from the Human Gene Mutation Database (HGMD), the Human Cytochrome P450 Allele Nomenclature Database, and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers, Cancer Mutation PCR Arrays and Assays, and Copy Number PCR Arrays from QIAGEN)
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Selected SNPs for TRPC2 (see all 355)    About this table    
Genomic DataTranscription Related DataAllele Frequencies
SNP IDValidClinical
significance
Chr 11 posSequence#AA
Chg
TypeMore#Allele
freq
PopTotal
sample
More
----------
rs1115504081,2
F--3645738(+) TACCCG/ATGGGA 1 -- us2k11Minor allele frequency- A:0.50CSA 2
rs1171393351,2
F--3645791(+) CATGTA/GATAAA 1 -- us2k11Minor allele frequency- G:0.02EA 120
rs608474071,2
C,F--3645895(+) CACCCT/CACCCT 1 -- us2k15Minor allele frequency- C:0.22WA CSA NA EA 362
rs1480617591,2
C--3645941(+) TTCCCA/GACCAC 1 -- us2k10--------
rs580142831,2
C,F--3646003(+) TTGCCT/CCTTCC 1 -- us2k15Minor allele frequency- C:0.23WA CSA NA EA 362
rs1114516291,2
F--3646044(+) CTCCTC/TCTTCA 1 -- us2k11Minor allele frequency- T:0.50CSA 2
rs71152781,2
C,F,H--3646116(+) tccatC/Tcctaa 1 -- us2k112Minor allele frequency- T:0.23NS EA NA WA CSA 784
rs71152841,2
C,F,H--3646127(+) acaccC/Tataac 1 -- us2k112Minor allele frequency- T:0.24NS EA NA WA CSA 784
rs71036801,2
C,F,H--3646181(+) ttgtgT/Ggagac 1 -- us2k111Minor allele frequency- G:0.14NS EA NA WA CSA 666
rs1505872481,2
--3646201(+) TTACCC/TACTAT 1 -- us2k10--------

HapMap Linkage Disequilibrium report for TRPC2 (3631131 - 3658789 bp)

Structural Variations
     Database of Genomic Variants (DGV) Selected variations for TRPC2 (see all 18):    About this table    
Variant IDTypeSubtypePubMed ID
esv2744037CNV Deletion23290073
esv2675176CNV Deletion23128226
dgv186e199CNV Deletion23128226
esv2678063CNV Deletion23128226
esv2662660CNV Deletion23128226
esv2658889CNV Deletion23128226
nsv509385CNV Insertion20534489
nsv832052CNV Loss17160897
nsv825717CNV Loss20364138
nsv428247CNV Loss18775914

Site Specific Mutation Identification with PCR Assays
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DNA2.0 Custom Variant and Variant Library Synthesis for TRPC2

(in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Conferences by KenesGroup, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
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(in PubMed. Associations of this gene to articles via 1Entrez Gene, 2UniProtKB/Swiss-Prot, 3HGNC, 4GAD, 5PharmGKB, 6HMDB, 7DrugBank, 8UniProtKB/TrEMBL, 9 Novoseek, and/or 10fRNAdb)
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PubMed articles for TRPC2 gene, integrated from 10 sources (see all 12):
(articles sorted by number of sources associating them with TRPC2)
    Utopia: connect your pdf to the dynamic
world of online information

  1. TRPC2: molecular biology and functional importance. (PubMed id 17217050)1, 3 Yildirim E. and Birnbaumer L. (Handb Exp Pharmacol 2007)
  2. International Union of Pharmacology. XLIX. Nomenclature and structure-function relationships of transient receptor potential channels. (PubMed id 16382100)1, 3 Clapham D.E....Schultz G. (Pharmacol. Rev. 2005)
  3. TRPC1, a human homolog of a Drosophila store-operated channel. (PubMed id 7568191)1, 3 Wes P.D....Montell C. (Proc. Natl. Acad. Sci. U.S.A. 1995)
  4. Identification and analysis of unitary pseudogenes: historic and contemporary gene losses in humans and other primates. (PubMed id 20210993)1 Zhang Z.D....Gerstein M. (Genome Biol. 2010)
  5. Interaction of TRPC2 and TRPC6 in erythropoietin modulation of calcium influx. (PubMed id 14699131)1 Chu X....Miller B.A. (J. Biol. Chem. 2004)
  6. Homer binds TRPC family channels and is required for gating of TRPC1 by IP3 receptors. (PubMed id 14505576)1 Yuan J.P....Worley P.F. (Cell 2003)
  7. The mouse C-type transient receptor potential 2 (TRPC2) channel: alternative splicing and calmodulin binding to its N terminus. (PubMed id 12601176)1 Yildirim E....Birnbaumer L. (Proc. Natl. Acad. Sci. U.S.A. 2003)
  8. Relaxed selective pressure on an essential component of pheromone transduction in primate evolution. (PubMed id 12631698)1 Liman E.R. and Innan H. (Proc. Natl. Acad. Sci. U.S.A. 2003)
  9. Subunit composition of mammalian transient receptor potential channels in living cells. (PubMed id 12032305)1 Hofmann T.... Gudermann T. (Proc. Natl. Acad. Sci. U.S.A. 2002)
  10. Identification of common binding sites for calmodulin and inositol 1,4,5-trisphosphate receptors on the carboxyl termini of trp channels. (PubMed id 11290752)1 Tang J....Zhu M.X. (J. Biol. Chem. 2001)

(in PubMed, OMIM, and NCBI Bookshelf)
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 ANDOR
Aliases
Free Text  

  Query String
PubMed
OMIM
NCBI Bookshelf
  (Note: In FireFox, select the above section and copy using Ctrl-C)

(According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
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Entrez Gene: 7221 HGNC: 12334 AceView: TRPC2 Ensembl:ENSG00000182048 euGenes: HUgn7221
ECgene: TRPC2 H-InvDB: TRPC2

(According to HUGE)
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(According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL, and/or others, e.g. Wikipedia and GeneReviews, via UniProtKB/Swiss-Prot)
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NameDescription
PharmGKB entry for TRPC2 Pharmacogenomics, SNPs, Pathways

(Patent information from GeneIP,
Licensable technologies from WIS Yeda, Salk, Tufts,
IP news from LifeMap Sciences, Inc.)
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Patent Information for TRPC2 gene:
Search GeneIP for patents involving TRPC2

GeneCards and IP:
Japan Patent Office Licenses GeneCards     European Patent Office Licenses GeneCards     Improving the IP Search



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Advanced Cell Diagnostics, Animal models from inGenious Targeting Laboratory, genOway)
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