Human Gene SMO (uc003vos.3)
  Description: Homo sapiens smoothened, frizzled family receptor (SMO), mRNA.
RefSeq Summary (NM_005631): The protein encoded by this gene is a G protein-coupled receptor that interacts with the patched protein, a receptor for hedgehog proteins. The encoded protein tranduces signals to other proteins after activation by a hedgehog protein/patched protein complex. [provided by RefSeq, Jul 2010].
Transcript (Including UTRs)
   Position: hg19 chr7:128,845,991-128,853,385 Size: 7,395 Total Exon Count: 7 Strand: +
Coding Region
   Position: hg19 chr7:128,846,046-128,851,733 Size: 5,688 Coding Exon Count: 7 

Page IndexSequence and LinksPrimersGenetic AssociationsMalaCardsCTD
Gene AllelesRNA-Seq ExpressionMicroarray ExpressionRNA StructureOther SpeciesmRNA Descriptions
PathwaysOther NamesGeneReviewsModel InformationMethods
Data last updated at UCSC: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr7:128,845,991-128,853,385)mRNA (may differ from genome)Protein (360 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
BioGPSEnsemblExonPrimerGeneCardsGeneNetworkH-INV
HGNCLynxMalacardsMGIPubMedTreefam
Wikipedia

-  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


-  Genetic Association Studies of Complex Diseases and Disorders
  Genetic Association Database (archive): SMO
CDC HuGE Published Literature: SMO

-  MalaCards Disease Associations
  MalaCards Gene Search: SMO
Diseases sorted by gene-association score: curry-jones syndrome, somatic mosaic* (1550), basal cell carcinoma 1* (636), basal cell carcinoma* (465), medulloblastoma* (197), ameloblastoma (10), keratocystic odontogenic tumor (7), basal cell nevus syndrome (5)
* = Manually curated disease association

-  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: 23.95 RPKM in Ovary
Total median expression: 354.47 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 -6.3055-0.115 Picture PostScript Text
3' UTR -718.681652-0.435 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.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
No orthologGenome BrowserNo orthologNo orthologNo orthologNo ortholog
Gene DetailsGene Details    
Gene SorterGene Sorter    
 RGD    
 Protein Sequence    
 Alignment    

-  Descriptions from all associated GenBank mRNAs
  LF213729 - JP 2014500723-A/21232: Polycomb-Associated Non-Coding RNAs.
LF207062 - JP 2014500723-A/14565: Polycomb-Associated Non-Coding RNAs.
BC009989 - Homo sapiens smoothened homolog (Drosophila), mRNA (cDNA clone MGC:15193 IMAGE:4127774), complete cds.
AF120103 - Homo sapiens Gx protein mRNA, complete cds.
AB587396 - Synthetic construct DNA, clone: pF1KB5715, Homo sapiens SMO gene for smoothened homolog, without stop codon, in Flexi system.
DQ896647 - Synthetic construct Homo sapiens clone IMAGE:100011107; FLH196247.01L; RZPDo839G05153D smoothened homolog (Drosophila) (SMO) gene, encodes complete protein.
U84401 - Human smoothened mRNA, complete cds.
AF071494 - Homo sapiens Gx protein (GX) mRNA, complete cds.
MA449306 - JP 2018138019-A/21232: Polycomb-Associated Non-Coding RNAs.
MA442639 - JP 2018138019-A/14565: Polycomb-Associated Non-Coding RNAs.
BC004332 - Homo sapiens smoothened homolog (Drosophila), mRNA (cDNA clone IMAGE:3630958), with apparent retained intron.
LF360949 - JP 2014500723-A/168452: Polycomb-Associated Non-Coding RNAs.
LF360951 - JP 2014500723-A/168454: Polycomb-Associated Non-Coding RNAs.
AF130867 - Homo sapiens smoothened mRNA, partial cds.
JD240231 - Sequence 221255 from Patent EP1572962.
JD045119 - Sequence 26143 from Patent EP1572962.
JD283044 - Sequence 264068 from Patent EP1572962.
LF360952 - JP 2014500723-A/168455: Polycomb-Associated Non-Coding RNAs.
JD212159 - Sequence 193183 from Patent EP1572962.
JD487799 - Sequence 468823 from Patent EP1572962.
JD562359 - Sequence 543383 from Patent EP1572962.
JD157543 - Sequence 138567 from Patent EP1572962.
JD192649 - Sequence 173673 from Patent EP1572962.
JD535526 - Sequence 516550 from Patent EP1572962.
JD279166 - Sequence 260190 from Patent EP1572962.
JD073611 - Sequence 54635 from Patent EP1572962.
JD307569 - Sequence 288593 from Patent EP1572962.
JD058029 - Sequence 39053 from Patent EP1572962.
JD051879 - Sequence 32903 from Patent EP1572962.
AF089720 - Homo sapiens smoothened mRNA, 3' UTR.
JD552424 - Sequence 533448 from Patent EP1572962.
JD203418 - Sequence 184442 from Patent EP1572962.
JD516033 - Sequence 497057 from Patent EP1572962.
JD503647 - Sequence 484671 from Patent EP1572962.
JD041581 - Sequence 22605 from Patent EP1572962.
JD427374 - Sequence 408398 from Patent EP1572962.
JD523960 - Sequence 504984 from Patent EP1572962.
JD476593 - Sequence 457617 from Patent EP1572962.
JD147845 - Sequence 128869 from Patent EP1572962.
JD494029 - Sequence 475053 from Patent EP1572962.
JD074388 - Sequence 55412 from Patent EP1572962.
JD554542 - Sequence 535566 from Patent EP1572962.
JD250780 - Sequence 231804 from Patent EP1572962.
JD187816 - Sequence 168840 from Patent EP1572962.
MA596526 - JP 2018138019-A/168452: Polycomb-Associated Non-Coding RNAs.
MA596528 - JP 2018138019-A/168454: Polycomb-Associated Non-Coding RNAs.
MA596529 - JP 2018138019-A/168455: Polycomb-Associated Non-Coding RNAs.

-  Biochemical and Signaling Pathways
  KEGG - Kyoto Encyclopedia of Genes and Genomes
hsa04340 - Hedgehog signaling pathway
hsa05200 - Pathways in cancer
hsa05217 - Basal cell carcinoma

-  Other Names for This Gene
  Alternate Gene Symbols: BC004332
UCSC ID: uc003vos.3
RefSeq Accession: NM_005631

-  GeneReviews for This Gene
  GeneReviews article(s) related to gene SMO:
evc (Ellis-van Creveld Syndrome)

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: BC004332.1
exon count: 7CDS single in 3' UTR: no RNA size: 2646
ORF size: 1083CDS single in intron: no Alignment % ID: 99.88
txCdsPredict score: 2340.00frame shift in genome: no % Coverage: 97.69
has start codon: yes stop codon in genome: no # of Alignments: 1
has end codon: yes retained intron: yes # AT/AC introns 0
selenocysteine: no end bleed into intron: 1774# 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.