Human Gene TRPA1 (ENST00000262209.5) from GENCODE V44
  Description: Homo sapiens transient receptor potential cation channel subfamily A member 1 (TRPA1), mRNA. (from RefSeq NM_007332)
RefSeq Summary (NM_007332): The structure of the protein encoded by this gene is highly related to both the protein ankyrin and transmembrane proteins. The specific function of this protein has not yet been determined; however, studies indicate the function may involve a role in signal transduction and growth control. [provided by RefSeq, Jul 2008].
Gencode Transcript: ENST00000262209.5
Gencode Gene: ENSG00000104321.11
Transcript (Including UTRs)
   Position: hg38 chr8:72,021,250-72,075,584 Size: 54,335 Total Exon Count: 27 Strand: -
Coding Region
   Position: hg38 chr8:72,022,906-72,075,409 Size: 52,504 Coding Exon Count: 27 

Page IndexSequence and LinksUniProtKB CommentsPrimersMalaCardsCTD
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsPathwaysOther NamesMethods
Data last updated at UCSC: 2023-08-18 00:09:47

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr8:72,021,250-72,075,584)mRNA (may differ from genome)Protein (1119 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaAlphaFold
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HGNCHPRDLynxMalacardsMGIneXtProt
OMIMPubMedReactomeUniProtKBWikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: TRPA1_HUMAN
DESCRIPTION: RecName: Full=Transient receptor potential cation channel subfamily A member 1; AltName: Full=Ankyrin-like with transmembrane domains protein 1; AltName: Full=Transformation-sensitive protein p120;
FUNCTION: Receptor-activated non-selective cation channel involved in detection of pain and possibly also in cold perception and inner ear function. Has a central role in the pain response to endogenous inflammatory mediators and to a diverse array of volatile irritants, such as mustard oil, garlic and acrolein, an irritant from tears gas and vehicule exhaust fumes. Acts also as a ionotropic cannabinoid receptor by being activated by delta(9)- tetrahydrocannabinol (THC), the psychoactive component of marijuana. Not involved in menthol sensation. May be a component for the mechanosensitive transduction channel of hair cells in inner ear, thereby participating in the perception of sounds. Probably operated by a phosphatidylinositol second messenger system (By similarity).
ENZYME REGULATION: Inhibited by ruthenium red, a potent blocker of TRPV channels (By similarity).
SUBUNIT: Homotetramer (By similarity).
SUBCELLULAR LOCATION: Membrane; Multi-pass membrane protein (Probable).
TISSUE SPECIFICITY: Expressed at very low level. Expressed at very low level in human fibroblasts and at a moderate level in liposarcoma cells.
PTM: TRPA1 activation by electrophiles occurs though covalent modification of specific cysteine residues in the N-terminal cytoplasmic domain (By similarity).
SIMILARITY: Belongs to the transient receptor (TC 1.A.4) family.
SIMILARITY: Contains 15 ANK repeats.
WEB RESOURCE: Name=Protein Spotlight; Note=The power behind pain - Issue 82 of May 2007; URL="http://web.expasy.org/spotlight/back_issues/sptlt082.shtml";

-  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: TRPA1
Diseases sorted by gene-association score: episodic pain syndrome, familial, 1* (1629), somatoform disorder (17), dentin sensitivity (14), familial episodic pain syndrome (13), pain disorder (6)
* = Manually curated disease association

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

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 11.32 RPKM in Bladder
Total median expression: 25.94 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 -79.90175-0.457 Picture PostScript Text
3' UTR -362.401656-0.219 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
IPR002110 - Ankyrin_rpt
IPR020683 - Ankyrin_rpt-contain_dom
IPR005821 - Ion_trans_dom

Pfam Domains:
PF00023 - Ankyrin repeat
PF00520 - Ion transport protein

ModBase Predicted Comparative 3D Structure on O75762
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
Genome BrowserGenome BrowserGenome BrowserGenome BrowserGenome BrowserNo ortholog
Gene Details     
Gene Sorter     
MGIRGDEnsemblEnsemblWormBase 
Protein SequenceProtein SequenceProtein SequenceProtein SequenceProtein Sequence 
AlignmentAlignmentAlignmentAlignmentAlignment 

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0005216 ion channel activity
GO:0005262 calcium channel activity
GO:0015267 channel activity
GO:0015278 calcium-release channel activity
GO:0042802 identical protein binding
GO:0097604 temperature-gated cation channel activity

Biological Process:
GO:0006811 ion transport
GO:0006816 calcium ion transport
GO:0007166 cell surface receptor signaling pathway
GO:0009409 response to cold
GO:0010033 response to organic substance
GO:0014070 response to organic cyclic compound
GO:0019233 sensory perception of pain
GO:0034220 ion transmembrane transport
GO:0042493 response to drug
GO:0042542 response to hydrogen peroxide
GO:0048265 response to pain
GO:0050896 response to stimulus
GO:0050955 thermoception
GO:0050966 detection of mechanical stimulus involved in sensory perception of pain
GO:0050968 detection of chemical stimulus involved in sensory perception of pain
GO:0051209 release of sequestered calcium ion into cytosol
GO:0051289 protein homotetramerization
GO:0055085 transmembrane transport
GO:0070588 calcium ion transmembrane transport

Cellular Component:
GO:0005886 plasma membrane
GO:0005887 integral component of plasma membrane
GO:0016020 membrane
GO:0016021 integral component of membrane
GO:0032421 stereocilium bundle


-  Descriptions from all associated GenBank mRNAs
  AK307942 - Homo sapiens cDNA, FLJ97890.
Y10601 - Homo sapiens mRNA for ankyrin-like protein.
JD521190 - Sequence 502214 from Patent EP1572962.
JD550203 - Sequence 531227 from Patent EP1572962.
JD487353 - Sequence 468377 from Patent EP1572962.
JD244403 - Sequence 225427 from Patent EP1572962.
JD110126 - Sequence 91150 from Patent EP1572962.
JD402494 - Sequence 383518 from Patent EP1572962.
JD516497 - Sequence 497521 from Patent EP1572962.
JD201853 - Sequence 182877 from Patent EP1572962.
JD355056 - Sequence 336080 from Patent EP1572962.
JD320684 - Sequence 301708 from Patent EP1572962.
JD524267 - Sequence 505291 from Patent EP1572962.
JD090807 - Sequence 71831 from Patent EP1572962.
JD411540 - Sequence 392564 from Patent EP1572962.
JD357994 - Sequence 339018 from Patent EP1572962.
JD298323 - Sequence 279347 from Patent EP1572962.
JD296143 - Sequence 277167 from Patent EP1572962.
JD501619 - Sequence 482643 from Patent EP1572962.
JD121843 - Sequence 102867 from Patent EP1572962.
JD555819 - Sequence 536843 from Patent EP1572962.
JD130063 - Sequence 111087 from Patent EP1572962.
JD530968 - Sequence 511992 from Patent EP1572962.
JD560048 - Sequence 541072 from Patent EP1572962.
JD551453 - Sequence 532477 from Patent EP1572962.
JD088027 - Sequence 69051 from Patent EP1572962.
BC153003 - Synthetic construct Homo sapiens clone IMAGE:100016279, MGC:184253 transient receptor potential cation channel, subfamily A, member 1 (TRPA1) mRNA, encodes complete protein.
BC148423 - Synthetic construct Homo sapiens clone IMAGE:100015422, MGC:183030 transient receptor potential cation channel, subfamily A, member 1 (TRPA1) mRNA, encodes complete protein.
AB527231 - Synthetic construct DNA, clone: pF1KB7348, Homo sapiens TRPA1 gene for transient receptor potential cation channel, subfamily A, member 1, without stop codon, in Flexi system.
JD542260 - Sequence 523284 from Patent EP1572962.
JD155668 - Sequence 136692 from Patent EP1572962.

-  Biochemical and Signaling Pathways
  Reactome (by CSHL, EBI, and GO)

Protein O75762 (Reactome details) participates in the following event(s):

R-HSA-3295579 TRPs transport extracellular Ca2+ to cytosol
R-HSA-3295583 TRP channels
R-HSA-2672351 Stimuli-sensing channels
R-HSA-983712 Ion channel transport
R-HSA-382551 Transport of small molecules

-  Other Names for This Gene
  Alternate Gene Symbols: A6NIN6, ANKTM1, ENST00000262209.1, ENST00000262209.2, ENST00000262209.3, ENST00000262209.4, NM_007332, O75762, TRPA1_HUMAN, uc003xza.1, uc003xza.2, uc003xza.3, uc003xza.4, uc003xza.5
UCSC ID: ENST00000262209.5
RefSeq Accession: NM_007332
Protein: O75762 (aka TRPA1_HUMAN)
CCDS: CCDS34908.1

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