Human Gene CNR1 (ENST00000369501.3_6) from GENCODE V47lift37

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Description: cannabinoid receptor 1, transcript variant 1 (from RefSeq NM_016083.6)
Gencode Transcript: ENST00000369501.3_6
Gencode Gene: ENSG00000118432.13_13
Transcript (Including UTRs)
Position: hg19 chr6:88,849,583-88,876,066 Size: 26,484 Total Exon Count: 2 Strand: -
Coding Region
Position: hg19 chr6:88,853,575-88,854,993 Size: 1,419 Coding Exon Count: 1

Page Index	Sequence and Links	Primers	MalaCards	CTD	Gene Alleles
RNA-Seq Expression	Microarray Expression	RNA Structure	Other Species	mRNA Descriptions	Other Names
Model Information	Methods

Data last updated at UCSC: 2024-08-22 23:36:26

Sequence and Links to Tools and Databases

Genomic Sequence (chr6:88,849,583-88,876,066)			mRNA (may differ from genome)		Protein (472 aa)
Gene Sorter	Genome Browser	Other Species FASTA	VisiGene	Gene interactions	Table Schema
AlphaFold	BioGPS	Ensembl	Entrez Gene	ExonPrimer	GeneCards
HGNC	Human Cortex Gene Expression	Malacards	MGI	OMIM	PubMed
UniProtKB	Wikipedia	BioGrid CRISPR DB

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: CNR1 Diseases sorted by gene-association score: cannabis dependence (33), chronic pain (27), cannabis abuse (24), hallucinogen dependence (18), substance dependence (16), obesity (13), drug dependence (13), autoimmune encephalitis (12), transient tic disorder (11), post-traumatic stress disorder (10), uremic pruritus (10), eating disorder (10), cyclic vomiting syndrome (9), doxorubicin induced cardiomyopathy (9), withdrawal disorder (7), diverticulitis of colon (6), pain agnosia (6), agnosia (6), drug-induced mental disorder (6), drug psychosis (6), alcohol abuse (6), amnestic disorder (5), multiple sclerosis, disease progression, modifier of (5), tendinosis (5), alcohol dependence (3), schizophrenia (2), central nervous system disease (2), psychotic disorder (2), overnutrition (1), parkinson disease, late-onset (1), disease of mental health (1), specific developmental disorder (1), diabetes mellitus, noninsulin-dependent (1), amyotrophic lateral sclerosis 1 (0)

Comparative Toxicogenomics Database (CTD)


	The following chemicals interact with this gene C089032 rimonabant C054649 3-(2-hydroxy-4-(1,1-dimethylheptyl)phenyl)-4-(3-hydroxypropyl)cyclohexanol C070417 Win 55212-2 C078814 anandamide C103505 AM 251 C062018 HU 211 D013759 Tetrahydrocannabinol C521311 N-(3-(4-chlorophenyl)-2-(3-cyanophenyl)-1-methylpropyl)-2-methyl-2-((5-(trifluoromethyl)pyridin-2-yl)oxy)propanamide C471106 1,7-bis(4-hydroxy-3-methoxyphenyl)-1,4,6-heptatrien-3-one C094503 2-arachidonylglycerol more ... click here to view the complete list

Common Gene Haplotype Alleles


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RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)


	Highest median expression: 11.31 RPKM in Pituitary Total median expression: 166.53 RPKM View in GTEx track of Genome Browser View at GTEx portal View GTEx Body Map

Microarray Expression Data


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mRNA Secondary Structure of 3' and 5' UTRs

Region	Fold Energy	Bases	Energy/Base	Display As
5' UTR	-313.40	608	-0.515	Picture	PostScript	Text
3' UTR	-996.10	3992	-0.250	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.

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.

Mouse	Rat	Zebrafish	D. melanogaster	C. elegans	S. cerevisiae
No ortholog	No ortholog	No ortholog	No ortholog	No ortholog	No ortholog
Gene Details	Gene Details
Gene Sorter	Gene Sorter
	RGD

Descriptions from all associated GenBank mRNAs


	X54937 - Human mRNA for cannabinoid receptor. AK313908 - Homo sapiens cDNA, FLJ94545, highly similar to Homo sapiens cannabinoid receptor 1 (brain) (CNR1), transcriptvariant 2, mRNA. KJ896623 - Synthetic construct Homo sapiens clone ccsbBroadEn_06017 CNR1 gene, encodes complete protein. JD037542 - Sequence 18566 from Patent EP1572962. BX538191 - Homo sapiens mRNA; cDNA DKFZp686I07204 (from clone DKFZp686I07204). JD184875 - Sequence 165899 from Patent EP1572962. JD434322 - Sequence 415346 from Patent EP1572962. JD059535 - Sequence 40559 from Patent EP1572962. JD367990 - Sequence 349014 from Patent EP1572962. JD088459 - Sequence 69483 from Patent EP1572962. JD332791 - Sequence 313815 from Patent EP1572962. JD466937 - Sequence 447961 from Patent EP1572962. JD280542 - Sequence 261566 from Patent EP1572962. JD343709 - Sequence 324733 from Patent EP1572962. JD446277 - Sequence 427301 from Patent EP1572962. JD503909 - Sequence 484933 from Patent EP1572962. JD082475 - Sequence 63499 from Patent EP1572962. JD307893 - Sequence 288917 from Patent EP1572962. JD272813 - Sequence 253837 from Patent EP1572962. JD083710 - Sequence 64734 from Patent EP1572962. JD243432 - Sequence 224456 from Patent EP1572962. JD545015 - Sequence 526039 from Patent EP1572962. JD082263 - Sequence 63287 from Patent EP1572962. JD309836 - Sequence 290860 from Patent EP1572962. JD273151 - Sequence 254175 from Patent EP1572962. JD248092 - Sequence 229116 from Patent EP1572962. JD339286 - Sequence 320310 from Patent EP1572962. JD051885 - Sequence 32909 from Patent EP1572962. JD274041 - Sequence 255065 from Patent EP1572962. JD526654 - Sequence 507678 from Patent EP1572962. JD288476 - Sequence 269500 from Patent EP1572962. JD147202 - Sequence 128226 from Patent EP1572962. JD304306 - Sequence 285330 from Patent EP1572962. X81120 - H.sapiens mRNA for central cannabinoid receptor. JD169465 - Sequence 150489 from Patent EP1572962. JD242292 - Sequence 223316 from Patent EP1572962. KC292264 - Homo sapiens cannabinoid receptor 1 transcript variant 2 (CNR1) mRNA, complete cds. BC074811 - Homo sapiens cannabinoid receptor 1 (brain), transcript variant 1, mRNA (cDNA clone MGC:103925 IMAGE:30915316), complete cds. BC074812 - Homo sapiens cannabinoid receptor 1 (brain), transcript variant 1, mRNA (cDNA clone MGC:104081 IMAGE:30915532), complete cds. JD341712 - Sequence 322736 from Patent EP1572962. AF107262 - Homo sapiens central cannabinoid receptor (CB1K5) mRNA, complete cds. AY766182 - Homo sapiens cannabinoid receptor 1 splice variant CB1b mRNA, complete cds, alternatively spliced. AY995204 - Homo sapiens cannabinoid receptor type-I mRNA, complete cds. BC100968 - Homo sapiens cannabinoid receptor 1 (brain), mRNA (cDNA clone MGC:119258 IMAGE:40004970), complete cds. BC100969 - Homo sapiens cannabinoid receptor 1 (brain), mRNA (cDNA clone MGC:119259 IMAGE:40004975), complete cds. BC100970 - Homo sapiens cannabinoid receptor 1 (brain), mRNA (cDNA clone MGC:119260 IMAGE:40004978), complete cds. BC100971 - Homo sapiens cannabinoid receptor 1 (brain), mRNA (cDNA clone MGC:119261 IMAGE:40004979), complete cds. DQ067455 - Homo sapiens cannabinoid receptor mRNA, complete cds. X81121 - H.sapiens mRNA for central cannabinoid receptor, short isoform. BC095513 - Homo sapiens cannabinoid receptor 1 (brain), mRNA (cDNA clone IMAGE:7002007), partial cds. AB527293 - Synthetic construct DNA, clone: pF1KB3065, Homo sapiens CNR1 gene for cannabinoid receptor 1, without stop codon, in Flexi system. JD521042 - Sequence 502066 from Patent EP1572962. BC037581 - Homo sapiens, clone IMAGE:5244076, mRNA.

Other Names for This Gene


	Alternate Gene Symbols: CNR1 , ENST00000369501.1, ENST00000369501.2, NM_016083, S5TLS4, S5TLS4_HUMAN, uc318hpu.1, uc318hpu.2 UCSC ID: ENST00000369501.3_6 RefSeq Accession: NM_016083.6

Gene Model Information


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Methods, Credits, and Use Restrictions


	Click here for details on how this gene model was made and data restrictions if any.