Human Gene CROT (ENST00000331536.8_4) from GENCODE V47lift37

JavaScript is disabled in your web browser

You must have JavaScript enabled in your web browser to use the Genome Browser

Description: carnitine O-octanoyltransferase, transcript variant 2 (from RefSeq NM_021151.4)
Gencode Transcript: ENST00000331536.8_4
Gencode Gene: ENSG00000005469.12_6
Transcript (Including UTRs)
Position: hg19 chr7:86,974,980-87,029,110 Size: 54,131 Total Exon Count: 18 Strand: +
Coding Region
Position: hg19 chr7:86,978,385-87,027,960 Size: 49,576 Coding Exon Count: 16

Page Index	Sequence and Links	UniProtKB Comments	Primers	CTD	Gene Alleles
RNA-Seq Expression	Microarray Expression	RNA Structure	Protein Structure	Other Species	GO Annotations
mRNA Descriptions	Pathways	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 (chr7:86,974,980-87,029,110)			mRNA (may differ from genome)		Protein (612 aa)
Gene Sorter	Genome Browser	Other Species FASTA	VisiGene	Gene interactions	Table Schema
AlphaFold	BioGPS	Ensembl	Entrez Gene	ExonPrimer	GeneCards
HGNC	MGI	OMIM	PubMed	Reactome	UniProtKB
Wikipedia	BioGrid CRISPR DB

Comments and Description Text from UniProtKB


	ID: OCTC_HUMAN DESCRIPTION: RecName: Full=Peroxisomal carnitine O-octanoyltransferase; Short=COT; EC=2.3.1.137; FUNCTION: Beta-oxidation of fatty acids. The highest activity concerns the C6 to C10 chain length substrate. Converts the end product of pristanic acid beta oxidation, 4,8-dimethylnonanoyl- CoA, to its corresponding carnitine ester. CATALYTIC ACTIVITY: Octanoyl-CoA + L-carnitine = CoA + L- octanoylcarnitine. PATHWAY: Lipid metabolism; fatty acid beta-oxidation. SUBUNIT: Monomer (Probable). SUBCELLULAR LOCATION: Peroxisome (Potential). SIMILARITY: Belongs to the carnitine/choline acetyltransferase family.

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

Comparative Toxicogenomics Database (CTD)


	The following chemicals interact with this gene D013749 Tetrachlorodibenzodioxin C023036 perfluorooctanoic acid D010634 Phenobarbital D011285 Pregnenolone Carbonitrile C006253 pirinixic acid C517826 tetrabrominated diphenyl ether 47 C049325 1,2-dithiol-3-thione C111118 2',3,3',4',5-pentachloro-4-hydroxybiphenyl C023514 2,6-dinitrotoluene C023035 3,4,5,3',4'-pentachlorobiphenyl C027576 4-hydroxy-2-nonenal D000082 Acetaminophen D016604 Aflatoxin B1 D000643 Ammonium Chloride D001151 Arsenic D001629 Bezafibrate D019256 Cadmium Chloride D002994 Clofibrate D002995 Clofibric Acid D003300 Copper D003314 Corn Oil D016572 Cyclosporine D004041 Dietary Fats D004052 Diethylnitrosamine D004785 Environmental Pollutants D004958 Estradiol D005839 Gentamicins D007213 Indomethacin D008095 Lithocholic Acid D008344 Maneb D010269 Paraquat D019438 Ritonavir D012822 Silicon Dioxide D013752 Tetracycline D014635 Valproic Acid C103303 alitretinoin D019324 beta-Naphthoflavone C095105 bexarotene C006780 bisphenol A C045651 epigallocatechin gallate C500085 muraglitazar C008698 octanoylcarnitine C076994 perfluorooctane sulfonic acid C027373 potassium chromate(VI) C045950 propiconazole C089730 rosiglitazone C501413 tesaglitazar C057693 troglitazone

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: 14.58 RPKM in Thyroid Total median expression: 232.06 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

Region	Fold Energy	Bases	Energy/Base	Display As
5' UTR	-78.10	216	-0.362	Picture	PostScript	Text
3' UTR	-303.10	1150	-0.264	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
IPR000542 - Carn_acyl_trans

Pfam Domains:
PF00755 - Choline/Carnitine o-acyltransferase

SCOP Domains:
52777 - CoA-dependent acyltransferases

ModBase Predicted Comparative 3D Structure on Q9UKG9


Front	Top	Side

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.

Mouse	Rat	Zebrafish	D. melanogaster	C. elegans	S. cerevisiae
No ortholog	No ortholog	No ortholog	No ortholog	Genome Browser	No ortholog
Gene Details	Gene Details		Gene Details	Gene Details
Gene Sorter	Gene Sorter		Gene Sorter	Gene Sorter
	RGD	Ensembl		WormBase
				Protein Sequence
				Alignment

Gene Ontology (GO) Annotations with Structured Vocabulary


	Molecular Function: GO:0005102 receptor binding GO:0008458 carnitine O-octanoyltransferase activity GO:0016740 transferase activity GO:0016746 transferase activity, transferring acyl groups Biological Process: GO:0006091 generation of precursor metabolites and energy GO:0006625 protein targeting to peroxisome GO:0006629 lipid metabolic process GO:0006631 fatty acid metabolic process GO:0006635 fatty acid beta-oxidation GO:0009437 carnitine metabolic process GO:0015908 fatty acid transport GO:0015936 coenzyme A metabolic process GO:0033540 fatty acid beta-oxidation using acyl-CoA oxidase GO:0051791 medium-chain fatty acid metabolic process Cellular Component: GO:0005777 peroxisome GO:0005782 peroxisomal matrix GO:0005829 cytosol GO:0043231 intracellular membrane-bounded organelle

Descriptions from all associated GenBank mRNAs


	AK127901 - Homo sapiens cDNA FLJ46007 fis, clone SMINT2014721, highly similar to Peroxisomal carnitine octanoyltransferase (EC 2.3.1.-). AK313487 - Homo sapiens cDNA, FLJ94040. BC051874 - Homo sapiens carnitine O-octanoyltransferase, mRNA (cDNA clone IMAGE:6166795), complete cds. BC039004 - Homo sapiens carnitine O-octanoyltransferase, mRNA (cDNA clone MGC:47608 IMAGE:5242962), complete cds. JD460748 - Sequence 441772 from Patent EP1572962. BC012483 - Homo sapiens carnitine O-octanoyltransferase, mRNA (cDNA clone IMAGE:4498924), with apparent retained intron. JD409632 - Sequence 390656 from Patent EP1572962. BC019226 - Homo sapiens cDNA clone IMAGE:3961342, containing frame-shift errors. AF168793 - Homo sapiens peroxisomal carnitine octanoyltransferase mRNA, complete cds. AF073770 - Homo sapiens carnitine octanoyltransferase mRNA, complete cds. BC006015 - Homo sapiens carnitine O-octanoyltransferase, mRNA (cDNA clone IMAGE:3683631). JD174932 - Sequence 155956 from Patent EP1572962. KJ900846 - Synthetic construct Homo sapiens clone ccsbBroadEn_10240 CROT gene, encodes complete protein. AK300114 - Homo sapiens cDNA FLJ56931 complete cds, highly similar to Peroxisomal carnitine O-octanoyltransferase (EC 2.3.1.137). AF052187 - Homo sapiens clone 24511 mRNA sequence. JD091153 - Sequence 72177 from Patent EP1572962. JD059439 - Sequence 40463 from Patent EP1572962. JD250015 - Sequence 231039 from Patent EP1572962. JD433618 - Sequence 414642 from Patent EP1572962. JD478492 - Sequence 459516 from Patent EP1572962. JD463744 - Sequence 444768 from Patent EP1572962. JD148228 - Sequence 129252 from Patent EP1572962. JD249697 - Sequence 230721 from Patent EP1572962. JD101891 - Sequence 82915 from Patent EP1572962. JD471833 - Sequence 452857 from Patent EP1572962. JD471834 - Sequence 452858 from Patent EP1572962. JD564424 - Sequence 545448 from Patent EP1572962. JD558339 - Sequence 539363 from Patent EP1572962. JD441424 - Sequence 422448 from Patent EP1572962. JD188145 - Sequence 169169 from Patent EP1572962. JD112885 - Sequence 93909 from Patent EP1572962. JD537379 - Sequence 518403 from Patent EP1572962. JD537380 - Sequence 518404 from Patent EP1572962. JD194807 - Sequence 175831 from Patent EP1572962. JD136071 - Sequence 117095 from Patent EP1572962. JD361541 - Sequence 342565 from Patent EP1572962. JD265971 - Sequence 246995 from Patent EP1572962. JD206933 - Sequence 187957 from Patent EP1572962. JD351948 - Sequence 332972 from Patent EP1572962. JD257374 - Sequence 238398 from Patent EP1572962. JD489778 - Sequence 470802 from Patent EP1572962. JD558779 - Sequence 539803 from Patent EP1572962. JD532278 - Sequence 513302 from Patent EP1572962. JD442981 - Sequence 424005 from Patent EP1572962. JD335391 - Sequence 316415 from Patent EP1572962. JD335392 - Sequence 316416 from Patent EP1572962. JD457191 - Sequence 438215 from Patent EP1572962. JD388429 - Sequence 369453 from Patent EP1572962. JD118489 - Sequence 99513 from Patent EP1572962. JD497936 - Sequence 478960 from Patent EP1572962. JD200061 - Sequence 181085 from Patent EP1572962. JD282136 - Sequence 263160 from Patent EP1572962. JD538759 - Sequence 519783 from Patent EP1572962. JD509552 - Sequence 490576 from Patent EP1572962. JD038006 - Sequence 19030 from Patent EP1572962.

Biochemical and Signaling Pathways


	Reactome (by CSHL, EBI, and GO) Protein Q9UKG9 (Reactome details) participates in the following event(s): R-HSA-390281 4,8-dimethylnonanoyl-CoA + carnitine => 4,8-dimethylnonanoylcarnitine + CoASH R-HSA-9033233 PEX5S,L binds cargo proteins containing PTS1 R-HSA-9033236 PEX5S,L:Cargo binds PEX13:PEX14 of PEX13:PEX14:PEX2:PEX10:PEX12 (Docking and Translocation Complex) R-HSA-9033241 Peroxisomal protein import R-HSA-389887 Beta-oxidation of pristanoyl-CoA R-HSA-392499 Metabolism of proteins R-HSA-390918 Peroxisomal lipid metabolism R-HSA-8978868 Fatty acid metabolism R-HSA-556833 Metabolism of lipids R-HSA-1430728 Metabolism

Other Names for This Gene


	Alternate Gene Symbols: A4D1D6, COT, E7EQF2, ENST00000331536.1, ENST00000331536.2, ENST00000331536.3, ENST00000331536.4, ENST00000331536.5, ENST00000331536.6, ENST00000331536.7, NM_021151, OCTC_HUMAN, Q86V17, Q8IUW9, Q9UKG9, Q9Y6I2, uc317tfy.1, uc317tfy.2 UCSC ID: ENST00000331536.8_4 RefSeq Accession: NM_021151.4 Protein: Q9UKG9 (aka OCTC_HUMAN)

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.