Human Gene ACOT9 (uc004dao.3)
  Description: Homo sapiens acyl-CoA thioesterase 9 (ACOT9), nuclear gene encoding mitochondrial protein, transcript variant 1, mRNA.
RefSeq Summary (NM_001037171): The protein encoded by this gene is a mitochondrial acyl-CoA thioesterase of unknown function. Two transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Mar 2010].
Transcript (Including UTRs)
   Position: hg19 chrX:23,721,777-23,761,407 Size: 39,631 Total Exon Count: 16 Strand: -
Coding Region
   Position: hg19 chrX:23,722,011-23,761,261 Size: 39,251 Coding Exon Count: 16 

Page IndexSequence and LinksPrimersMalaCardsCTDGene Alleles
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesmRNA Descriptions
PathwaysOther NamesModel InformationMethods
Data last updated at UCSC: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chrX:23,721,777-23,761,407)mRNA (may differ from genome)Protein (448 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
H-INVHGNCHPRDLynxMalacardsMGI
OMIMPubMedReactomeTreefamUniProtKBWikipedia
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: ACOT9
Diseases sorted by gene-association score: kabuki syndrome 1 (2)

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

+  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: 12.86 RPKM in Lung
Total median expression: 387.84 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 -58.40146-0.400 Picture PostScript Text
3' UTR -52.88234-0.226 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
  SCOP Domains:
54637 - Thioesterase/thiol ester dehydrase-isomerase

ModBase Predicted Comparative 3D Structure on Q9Y305-4
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
No orthologNo orthologGenome BrowserNo orthologNo orthologNo ortholog
Gene Details     
Gene Sorter     
  Ensembl   
  Protein Sequence   
  Alignment   

-  Descriptions from all associated GenBank mRNAs
  AF132950 - Homo sapiens CGI-16 protein mRNA, complete cds.
BX648512 - Homo sapiens mRNA; cDNA DKFZp686K1372 (from clone DKFZp686K1372).
AK000659 - Homo sapiens cDNA FLJ20652 fis, clone KAT01774, highly similar to AF132950 Homo sapiens CGI-16 protein mRNA.
AF241787 - Homo sapiens CGI16-iso mRNA, complete cds.
AK024337 - Homo sapiens cDNA FLJ14275 fis, clone PLACE1005052, highly similar to Acyl-coenzyme A thioesterase 9 (EC 3.1.2.-).
BC136671 - Homo sapiens acyl-CoA thioesterase 9, mRNA (cDNA clone MGC:168284 IMAGE:9020661), complete cds.
BC144360 - Homo sapiens acyl-CoA thioesterase 9, mRNA (cDNA clone MGC:177898 IMAGE:9052881), complete cds.
BC144370 - Homo sapiens cDNA clone IMAGE:9052891.
AB528567 - Synthetic construct DNA, clone: pF1KB5521, Homo sapiens ACOT9 gene for acyl-CoA thioesterase 9, without stop codon, in Flexi system.
JD433932 - Sequence 414956 from Patent EP1572962.
JD098761 - Sequence 79785 from Patent EP1572962.
JD417522 - Sequence 398546 from Patent EP1572962.
BC012573 - Homo sapiens acyl-CoA thioesterase 9, mRNA (cDNA clone IMAGE:3827798), complete cds.
JF432454 - Synthetic construct Homo sapiens clone IMAGE:100073665 acyl-CoA thioesterase 9 (ACOT9) gene, encodes complete protein.
KJ904697 - Synthetic construct Homo sapiens clone ccsbBroadEn_14091 ACOT9 gene, encodes complete protein.
JD173879 - Sequence 154903 from Patent EP1572962.

-  Biochemical and Signaling Pathways
  BioCyc Knowledge Library
PWY-5148 - acyl-CoA hydrolysis

Reactome (by CSHL, EBI, and GO)

Protein Q9Y305 (Reactome details) participates in the following event(s):

R-HSA-5690066 ACOT2,9,THEM4,5 hydrolyse MCFA-CoA, LCFA-CoA
R-HSA-77289 Mitochondrial Fatty Acid Beta-Oxidation
R-HSA-8978868 Fatty acid metabolism
R-HSA-556833 Metabolism of lipids
R-HSA-1430728 Metabolism

-  Other Names for This Gene
  Alternate Gene Symbols: CGI-16, NM_001037171, NP_001032248, Q9Y305-4
UCSC ID: uc004dao.3
RefSeq Accession: NM_001037171
Protein: Q9Y305-4, splice isoform of Q9Y305 CCDS: CCDS35216.1, CCDS43924.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_001037171.1
exon count: 16CDS single in 3' UTR: no RNA size: 1727
ORF size: 1347CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 2819.00frame shift in genome: no % Coverage: 100.00
has start codon: yes stop codon in genome: no # of Alignments: 1
has end codon: yes retained intron: no # AT/AC introns 0
selenocysteine: no end bleed into intron: 0# strange splices: 0
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.