Trpa1 (transient receptor potential cation channel, subfamily A, member 1) - Rat Genome Database

Send us a Message



Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Gene: Trpa1 (transient receptor potential cation channel, subfamily A, member 1) Rattus norvegicus
Analyze
Symbol: Trpa1
Name: transient receptor potential cation channel, subfamily A, member 1
RGD ID: 1303284
Description: Enables osmolarity-sensing cation channel activity and voltage-gated calcium channel activity. Involved in several processes, including cellular response to caffeine; positive regulation of transport; and regulation of nervous system process. Located in apical plasma membrane and axon. Used to study asthma and diabetic neuropathy. Human ortholog(s) of this gene implicated in familial episodic pain syndrome 1. Orthologous to human TRPA1 (transient receptor potential cation channel subfamily A member 1); INTERACTS WITH 3-phenylprop-2-enal; 4-hydroxynon-2-enal; aconitine.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: ANKTM1; ankyrin-like with transmembrane domains protein 1; transient receptor potential cation channel subfamily A member 1; wasabi receptor
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Allele / Splice: Trpa1em1Kcrd   Trpa1em1Gne  
Genetic Models: SD-Trpa1em1Gne W-Trpa1em1Kcrd
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.254,379,999 - 4,433,243 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl54,379,999 - 4,433,570 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx56,513,645 - 6,566,735 (+)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.058,152,548 - 8,205,642 (+)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.057,846,752 - 7,899,532 (+)NCBIRnor_WKY
Rnor_6.053,783,247 - 3,836,485 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl53,783,247 - 3,836,485 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.053,764,339 - 3,818,781 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.453,531,163 - 3,584,401 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.153,531,162 - 3,584,401 (+)NCBI
Celera53,971,809 - 4,024,939 (+)NCBICelera
Cytogenetic Map5q11NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
1,2-dibutyrin  (ISO)
1,2-dichloroethane  (ISO)
1,2-naphthoquinone  (ISO)
1,4-dithiothreitol  (ISO)
1-naphthol  (ISO)
1-nitronaphthalene  (ISO)
1-Oleoyl-2-acetyl-sn-glycerol  (ISO)
2,4-di-tert-butylphenol  (ISO)
2,4-dibromophenyl 2,4,5-tribromophenyl ether  (ISO)
2,4-xylenol  (ISO)
2,5-xylenol  (ISO)
2,6-Dimethylphenol  (ISO)
2-ethylhexan-1-ol  (ISO)
2-Ethylphenol  (ISO)
2-Methoxy-4-methylphenol  (ISO)
3,4-xylenol  (ISO)
3,5-xylenol  (ISO)
3-Ethylphenol  (ISO)
3-phenylprop-2-enal  (EXP,ISO)
4-ethylphenol  (ISO)
4-hydroxynon-2-enal  (EXP,ISO)
8-Br-cAMP  (ISO)
acetophenone  (ISO)
aconitine  (EXP)
acrolein  (EXP,ISO)
acrylamide  (ISO)
aflatoxin B1  (ISO)
allicin  (EXP,ISO)
allyl isothiocyanate  (EXP,ISO)
amiloride  (ISO)
arachidonic acid  (ISO)
atenolol  (ISO)
atropine  (ISO)
benzene  (ISO)
benzo[a]pyrene  (ISO)
benzo[a]pyrene diol epoxide I  (ISO)
bis(2-chloroethyl) sulfide  (ISO)
bisphenol A  (EXP)
buta-1,3-diene  (ISO)
cadmium dichloride  (EXP)
calcium atom  (EXP,ISO)
calcium(0)  (EXP,ISO)
Cannabichromene  (ISO)
cannabidiol  (EXP,ISO)
cannabidiolic acid  (ISO)
Cannabidivarin  (ISO)
Cannabinol  (ISO)
capsaicin  (EXP,ISO)
carbon dioxide  (EXP)
carvacrol  (EXP,ISO)
CGP 52608  (ISO)
cisplatin  (ISO)
citronellal  (ISO)
coniferyl aldehyde  (ISO)
crotonaldehyde  (EXP,ISO)
cyclophosphamide  (EXP)
deoxynivalenol  (ISO)
dibutyl phthalate  (ISO)
dorsomorphin  (ISO)
edelfosine  (ISO)
entinostat  (ISO)
eugenol  (EXP)
fluorescein 5-isothiocyanate  (ISO)
folic acid  (ISO)
formaldehyde  (EXP,ISO)
gadolinium atom  (ISO)
gentamycin  (ISO)
glutathione  (ISO)
hydrogen sulfide  (ISO)
hydroquinone  (ISO)
indometacin  (ISO)
isocyanates  (ISO)
isopentenyl diphosphate  (ISO)
L-1,4-dithiothreitol  (ISO)
Lasiocarpine  (ISO)
lidocaine  (EXP,ISO)
linalool  (ISO)
menadione  (ISO)
methylglyoxal  (ISO)
N(gamma)-nitro-L-arginine methyl ester  (ISO)
N-acetyl-1,4-benzoquinone imine  (EXP,ISO)
N-acetyl-L-cysteine  (ISO)
naphthalene  (ISO)
ozone  (ISO)
p-menthan-3-ol  (ISO)
p-methoxybenzaldehyde  (ISO)
paracetamol  (ISO)
picrocrocin  (ISO)
resiniferatoxin  (EXP)
ruthenium red  (ISO)
safranal  (ISO)
SB 431542  (ISO)
serotonin  (ISO)
styrene  (ISO)
tributyrin  (ISO)
trichostatin A  (ISO)
triptonide  (ISO)
tropan-3alpha-yl 3-hydroxy-2-phenylpropanoate  (ISO)
U-73122  (ISO)
valproic acid  (ISO)
WIN 55212-2  (EXP,ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
apical plasma membrane  (IDA)
axon  (IDA)
membrane  (IEA)
plasma membrane  (IEA,ISO,ISS)
stereocilium bundle  (IEA,ISO)

References

References - curated
# Reference Title Reference Citation
1. TRPA1 receptor modulation attenuates bladder overactivity induced by spinal cord injury. Andrade EL, etal., Am J Physiol Renal Physiol. 2011 May;300(5):F1223-34. doi: 10.1152/ajprenal.00535.2010. Epub 2011 Mar 2.
2. Species comparison and pharmacological characterization of human, monkey, rat, and mouse TRPA1 channels. Bianchi BR, etal., J Pharmacol Exp Ther. 2012 May;341(2):360-8. doi: 10.1124/jpet.111.189902. Epub 2012 Feb 7.
3. Expression of transient receptor potential ankyrin 1 (TRPA1) and its role in insulin release from rat pancreatic beta cells. Cao DS, etal., PLoS One. 2012;7(5):e38005. doi: 10.1371/journal.pone.0038005. Epub 2012 May 31.
4. TRPA1 contributes to cold hypersensitivity. del Camino D, etal., J Neurosci. 2010 Nov 10;30(45):15165-74. doi: 10.1523/JNEUROSCI.2580-10.2010.
5. HC-030031, a TRPA1 selective antagonist, attenuates inflammatory- and neuropathy-induced mechanical hypersensitivity. Eid SR, etal., Mol Pain. 2008 Oct 27;4:48. doi: 10.1186/1744-8069-4-48.
6. Intact Adelta-fibers up-regulate transient receptor potential A1 and contribute to cold hypersensitivity in neuropathic rats. Ji G, etal., Neuroscience. 2008 Jun 26;154(3):1054-66. doi: 10.1016/j.neuroscience.2008.04.039. Epub 2008 May 2.
7. Mustard oils and cannabinoids excite sensory nerve fibres through the TRP channel ANKTM1. Jordt SE, etal., Nature 2004 Jan 15;427(6971):260-5. Epub 2004 Jan 07.
8. Activation of TRPA1 by luminal stimuli induces EP4-mediated anion secretion in human and rat colon. Kaji I, etal., Am J Physiol Gastrointest Liver Physiol. 2012 Apr;302(7):G690-701. doi: 10.1152/ajpgi.00289.2011. Epub 2011 Dec 29.
9. Inhibiting TRPA1 ion channel reduces loss of cutaneous nerve fiber function in diabetic animals: sustained activation of the TRPA1 channel contributes to the pathogenesis of peripheral diabetic neuropathy. Koivisto A, etal., Pharmacol Res. 2012 Jan;65(1):149-58. doi: 10.1016/j.phrs.2011.10.006. Epub 2011 Nov 23.
10. Effects of novel TRPA1 receptor agonist ASP7663 in models of drug-induced constipation and visceral pain. Kojima R, etal., Eur J Pharmacol. 2014 Jan 15;723:288-93. doi: 10.1016/j.ejphar.2013.11.020. Epub 2013 Nov 28.
11. P2X3 receptors induced inflammatory nociception modulated by TRPA1, 5-HT3 and 5-HT1A receptors. Krimon S, etal., Pharmacol Biochem Behav. 2013 Nov;112:49-55. doi: 10.1016/j.pbb.2013.09.017. Epub 2013 Oct 9.
12. TRPA1 modulation of spontaneous and mechanically evoked firing of spinal neurons in uninjured, osteoarthritic, and inflamed rats. McGaraughty S, etal., Mol Pain. 2010 Mar 5;6:14. doi: 10.1186/1744-8069-6-14.
13. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
14. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
15. Behavioral characterization of a CRISPR-generated TRPA1 knockout rat in models of pain, itch, and asthma. Reese RM, etal., Sci Rep. 2020 Jan 22;10(1):979. doi: 10.1038/s41598-020-57936-5.
16. GOA pipeline RGD automated data pipeline
17. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
18. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
19. Contribution of TRPV1-TRPA1 interaction to the single channel properties of the TRPA1 channel. Staruschenko A, etal., J Biol Chem. 2010 May 14;285(20):15167-77. doi: 10.1074/jbc.M110.106153. Epub 2010 Mar 15.
20. Role of TRPV1 and TRPA1 in visceral hypersensitivity to colorectal distension during experimental colitis in rats. Vermeulen W, etal., Eur J Pharmacol. 2013 Jan 5;698(1-3):404-12. doi: 10.1016/j.ejphar.2012.10.014. Epub 2012 Oct 23.
21. Warmth suppresses and desensitizes damage-sensing ion channel TRPA1. Wang S, etal., Mol Pain. 2012 Mar 29;8:22. doi: 10.1186/1744-8069-8-22.
22. TRPA1 is a component of the nociceptive response to CO2. Wang YY, etal., J Neurosci. 2010 Sep 29;30(39):12958-63. doi: 10.1523/JNEUROSCI.2715-10.2010.
23. Transient receptor potential A1 mediates an osmotically activated ion channel. Zhang XF, etal., Eur J Neurosci. 2008 Feb;27(3):605-11. doi: 10.1111/j.1460-9568.2008.06030.x.
Additional References at PubMed
PMID:12654248   PMID:15483558   PMID:15843607   PMID:16110328   PMID:16304633   PMID:16546170   PMID:16564016   PMID:16595689   PMID:16630838   PMID:16675144   PMID:16831854   PMID:17329204  
PMID:17517374   PMID:17571167   PMID:17584831   PMID:17588549   PMID:17943255   PMID:18272293   PMID:18297068   PMID:18398506   PMID:18463259   PMID:18598259   PMID:19158342   PMID:19211797  
PMID:19237591   PMID:19299646   PMID:19348834   PMID:19371346   PMID:19419422   PMID:19464796   PMID:19491712   PMID:19629446   PMID:19812688   PMID:19961905   PMID:20034057   PMID:20133428  
PMID:20167675   PMID:20182791   PMID:20497466   PMID:20547126   PMID:20588026   PMID:20717636   PMID:21076024   PMID:21316356   PMID:21619614   PMID:21653898   PMID:21868092   PMID:22588108  
PMID:22721614   PMID:22740698   PMID:22809691   PMID:22865090   PMID:22928941   PMID:23098993   PMID:23133534   PMID:23222658   PMID:23293814   PMID:23384628   PMID:23521647   PMID:23603259  
PMID:23707800   PMID:23784920   PMID:23832015   PMID:23842678   PMID:23846257   PMID:23873754   PMID:23916509   PMID:23918657   PMID:23959730   PMID:24071625   PMID:24358160   PMID:24607781  
PMID:24780252   PMID:25484020   PMID:25605129   PMID:25639234   PMID:25765567   PMID:25855297   PMID:25858491   PMID:25884403   PMID:25889103   PMID:25896791   PMID:26046936   PMID:26172081  
PMID:26274042   PMID:26393428   PMID:26567040   PMID:26643912   PMID:26888187   PMID:26922555   PMID:26935999   PMID:27236325   PMID:27411353   PMID:27497709   PMID:27589700   PMID:27748654  
PMID:27752892   PMID:27904941   PMID:28017670   PMID:28032561   PMID:28103292   PMID:28370084   PMID:28640016   PMID:28698251   PMID:28710476   PMID:29428952   PMID:29537196   PMID:29777700  
PMID:30236550   PMID:30510606   PMID:31016687   PMID:31144562   PMID:31257266   PMID:31531184   PMID:31866360   PMID:32035165   PMID:32484015   PMID:32572784   PMID:32708653   PMID:33232544  
PMID:33534373   PMID:33957206   PMID:34082374   PMID:34428744   PMID:35236901   PMID:35384152  


Genomics

Comparative Map Data
Trpa1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.254,379,999 - 4,433,243 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl54,379,999 - 4,433,570 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx56,513,645 - 6,566,735 (+)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.058,152,548 - 8,205,642 (+)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.057,846,752 - 7,899,532 (+)NCBIRnor_WKY
Rnor_6.053,783,247 - 3,836,485 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl53,783,247 - 3,836,485 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.053,764,339 - 3,818,781 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.453,531,163 - 3,584,401 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.153,531,162 - 3,584,401 (+)NCBI
Celera53,971,809 - 4,024,939 (+)NCBICelera
Cytogenetic Map5q11NCBI
TRPA1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38872,021,250 - 72,090,010 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl872,019,917 - 72,075,584 (-)EnsemblGRCh38hg38GRCh38
GRCh37872,933,485 - 72,987,819 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36873,096,040 - 73,150,373 (-)NCBINCBI36Build 36hg18NCBI36
Build 34873,096,039 - 73,150,373NCBI
Celera868,932,963 - 68,987,289 (-)NCBICelera
Cytogenetic Map8q21.11NCBI
HuRef868,428,222 - 68,482,529 (-)NCBIHuRef
CHM1_1872,986,840 - 73,041,189 (-)NCBICHM1_1
T2T-CHM13v2.0872,456,370 - 72,510,658 (-)NCBIT2T-CHM13v2.0
Trpa1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39114,942,868 - 14,989,086 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl114,942,872 - 14,989,086 (-)EnsemblGRCm39 Ensembl
GRCm38114,872,644 - 14,918,862 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl114,872,648 - 14,918,862 (-)EnsemblGRCm38mm10GRCm38
MGSCv37114,862,729 - 14,908,943 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36114,857,862 - 14,904,076 (-)NCBIMGSCv36mm8
Celera114,822,489 - 14,871,741 (-)NCBICelera
Cytogenetic Map1A3NCBI
Trpa1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554447,876,429 - 7,921,372 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554447,876,284 - 7,922,010 (+)NCBIChiLan1.0ChiLan1.0
TRPA1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1870,208,697 - 70,262,802 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl870,210,352 - 70,262,627 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0868,551,685 - 68,605,336 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
TRPA1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12920,951,736 - 21,000,956 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2920,951,716 - 21,001,208 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2921,214,374 - 21,266,355 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02921,050,161 - 21,102,458 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2921,050,159 - 21,111,731 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12921,102,449 - 21,154,677 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02921,151,285 - 21,203,541 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02921,431,610 - 21,483,919 (-)NCBIUU_Cfam_GSD_1.0
Trpa1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440530358,307,190 - 58,354,763 (+)NCBIHiC_Itri_2
SpeTri2.0NW_0049366481,094,460 - 1,141,394 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
TRPA1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl463,508,104 - 63,558,484 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1463,493,374 - 63,558,486 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2469,132,584 - 69,265,553 (+)NCBISscrofa10.2Sscrofa10.2susScr3
TRPA1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1867,698,067 - 67,754,407 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl867,698,786 - 67,751,885 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366603973,636,128 - 73,694,618 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Trpa1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462474418,997,462 - 19,042,227 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462474418,997,273 - 19,042,838 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1331756Rf34Renal function QTL 344.16275kidney blood vessel physiology trait (VT:0100012)absolute change in renal blood flow rate (CMO:0001168)5190450412Rat
70212Niddm25Non-insulin dependent diabetes mellitus QTL 253.54blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)51131345958Rat
1331771Rf35Renal function QTL 354.36965kidney blood vessel physiology trait (VT:0100012)absolute change in renal blood flow rate (CMO:0001168)572947086724018Rat
2312562Pur18Proteinuria QTL 182.60.001total urine protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)5213896532656739Rat
1576314Eutr1Estrogen induced uterine response QTL 1uterus integrity trait (VT:0010575)pyometritis severity score (CMO:0002009)52138965166875058Rat
631551Vetf1Vascular elastic tissue fragility QTL 150.0001aorta elastic tissue integrity trait (VT:0010556)artery internal elastic lamina non-tumorous lesion count (CMO:0001913)522822265904428Rat
8662454Vetf3Vascular elastic tissue fragility QTL 327.4artery integrity trait (VT:0010639)number of ruptures of the internal elastic lamina of the abdominal aorta and iliac arteries (CMO:0002562)5228222669540447Rat
2313085Bss59Bone structure and strength QTL 592.90.0001long bone metaphysis morphology trait (VT:0000133)tibia midshaft total cross-sectional area (CMO:0001715)5384401826141981Rat
1300117Hrtrt8Heart rate QTL 83.49heart pumping trait (VT:2000009)heart rate (CMO:0000002)5384401847869213Rat


Genetic Models
This gene Trpa1 is modified in the following models/strains
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:124
Count of miRNA genes:104
Interacting mature miRNAs:110
Transcripts:ENSRNOT00000009874
Prediction methods:Microtar, Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium
Low 1 1 20 22 12 8
Below cutoff 2 21 6 2 11 2 1 1 50 11 19 3 1

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000009874   ⟹   ENSRNOP00000009874
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl54,379,999 - 4,433,570 (+)Ensembl
Rnor_6.0 Ensembl53,783,247 - 3,836,485 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000118200   ⟹   ENSRNOP00000092038
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl54,379,999 - 4,433,570 (+)Ensembl
RefSeq Acc Id: NM_207608   ⟹   NP_997491
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.254,379,999 - 4,433,243 (+)NCBI
Rnor_6.053,783,247 - 3,836,485 (+)NCBI
Rnor_5.053,764,339 - 3,818,781 (+)NCBI
RGSC_v3.453,531,163 - 3,584,401 (+)RGD
Celera53,971,809 - 4,024,939 (+)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_997491 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAS78661 (Get FASTA)   NCBI Sequence Viewer  
  EDM11520 (Get FASTA)   NCBI Sequence Viewer  
  Q6RI86 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_997491   ⟸   NM_207608
- Sequence:
RefSeq Acc Id: ENSRNOP00000009874   ⟸   ENSRNOT00000009874
RefSeq Acc Id: ENSRNOP00000092038   ⟸   ENSRNOT00000118200
Protein Domains
Ion_trans

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q6RI86-F1-model_v2 AlphaFold Q6RI86 1-1125 view protein structure

Transcriptome

eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen


Strain Variation

Strain Sequence Variants (mRatBN7.2)
ACI/EurMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
ACI/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN-Lx/CubMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/SsN (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BUF/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH2/CubMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH3/CubMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
DA/OlaHsd (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/DuCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/NCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FHH/EurMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE16/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE18/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
GK/FarMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB10/IpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB2/IpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB20/IpcvMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB31/IpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB4/IpcvMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LE/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEW/Crl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF10A/StmMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF11/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1A/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1C/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF2B/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF3/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF4/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LH/MavRrrcAek (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LL/MavRrrcAek (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LN/MavRrrcAek (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/NRrrcMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MR/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MWF/Hsd (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
PVG/Seac (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHR/OlalpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHRSP/A3NCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SR/JrHsd (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SS/JrHsdMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WAG/RijCrl (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/NCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WN/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1303284 AgrOrtholog
BioCyc Gene G2FUF-42283 BioCyc
Ensembl Genes ENSRNOG00000007354 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000009874 ENTREZGENE
  ENSRNOP00000009874.2 UniProtKB/TrEMBL
  ENSRNOP00000092038.1 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000009874 ENTREZGENE
  ENSRNOT00000009874.3 UniProtKB/TrEMBL
  ENSRNOT00000118200.1 UniProtKB/TrEMBL
Gene3D-CATH 1.25.40.20 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro Ankyrin_rpt UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ankyrin_rpt-contain_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ion_trans_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:312896 UniProtKB/Swiss-Prot
NCBI Gene 312896 ENTREZGENE
Pfam Ank_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ion_trans UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Trpa1 PhenoGen
PRINTS ANKYRIN UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE ANK_REP_REGION UniProtKB/Swiss-Prot
  ANK_REPEAT UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART ANK UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF48403 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A8I6AD92_RAT UniProtKB/TrEMBL
  F1LRH9_RAT UniProtKB/TrEMBL
  Q6RI86 ENTREZGENE, UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2006-03-30 Trpa1  transient receptor potential cation channel, subfamily A, member 1    transient receptor potential cation channel subfamily A member 1  Name updated 1299863 APPROVED
2005-07-14 Trpa1  transient receptor potential cation channel subfamily A member 1      Symbol and Name status set to provisional 70820 PROVISIONAL

RGD Curation Notes
Note Type Note Reference
gene_domains member of the transient receptor ion channel family 1303969
gene_drugs activated by tetrahydrocannabinol and cannabinol; but does not appear to be activated by endocannabinoids 1303969
gene_expression expressed in trigeminal ganglial neurons 1303969