Mouse Gene Smpdl3a (ENSMUST00000020022.7) from GENCODE VM23 Comprehensive Transcript Set (only Basic displayed by default)
  Description: Mus musculus sphingomyelin phosphodiesterase, acid-like 3A (Smpdl3a), mRNA. (from RefSeq NM_020561)
Gencode Transcript: ENSMUST00000020022.7
Gencode Gene: ENSMUSG00000019872.13
Transcript (Including UTRs)
   Position: mm10 chr10:57,794,374-57,811,830 Size: 17,457 Total Exon Count: 8 Strand: +
Coding Region
   Position: mm10 chr10:57,794,682-57,811,515 Size: 16,834 Coding Exon Count: 8 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDRNA Structure
Protein StructureOther SpeciesGO AnnotationsmRNA DescriptionsOther NamesModel Information
Methods
Data last updated at UCSC: 2019-09-19

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr10:57,794,374-57,811,830)mRNA (may differ from genome)Protein (445 aa)
Gene SorterGenome BrowserOther Species FASTATable SchemaAlphaFoldBioGPS
EnsemblEntrez GeneExonPrimerGeneCardsMGIPubMed
SOURCEUniProtKB

-  Comments and Description Text from UniProtKB
  ID: ASM3A_MOUSE
DESCRIPTION: RecName: Full=Acid sphingomyelinase-like phosphodiesterase 3a; Short=ASM-like phosphodiesterase 3a; EC=3.1.4.-; Flags: Precursor;
SUBCELLULAR LOCATION: Secreted (By similarity).
SIMILARITY: Belongs to the acid sphingomyelinase 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
  • D000082 Acetaminophen
  • D004958 Estradiol
  • D004997 Ethinyl Estradiol
  • D013749 Tetrachlorodibenzodioxin
  • C016104 sodium bichromate
  • C028474 1,4-bis(2-(3,5-dichloropyridyloxy))benzene
  • C023514 2,6-dinitrotoluene
  • C532162 2-(1H-indazol-4-yl)-6-(4-methanesulfonylpiperazin-1-ylmethyl)-4-morpholin-4-ylthieno(3,2-d)pyrimidine
  • C009505 4,4'-diaminodiphenylmethane
  • C547126 AZM551248
          more ... click here to view the complete list

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -94.90308-0.308 Picture PostScript Text
3' UTR -67.60315-0.215 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
IPR017064 - ASM-like_Pdiesterase_prd
IPR004843 - Metallo_PEstase_dom

Pfam Domains:
PF00149 - Calcineurin-like phosphoesterase

SCOP Domains:
56300 - Metallo-dependent phosphatases

ModBase Predicted Comparative 3D Structure on P70158
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.
HumanRatZebrafishD. melanogasterC. elegansS. cerevisiae
Genome BrowserGenome BrowserNo orthologGenome BrowserNo orthologNo ortholog
Gene Details     
Gene Sorter     
GenBankRGDEnsemblEnsembl  
Protein SequenceProtein Sequence Protein Sequence  
AlignmentAlignment Alignment  

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0008081 phosphoric diester hydrolase activity
GO:0008270 zinc ion binding
GO:0016787 hydrolase activity
GO:0046872 metal ion binding
GO:0004767 sphingomyelin phosphodiesterase activity

Biological Process:
GO:0008150 biological_process
GO:0009143 nucleoside triphosphate catabolic process
GO:0006685 sphingomyelin catabolic process

Cellular Component:
GO:0005576 extracellular region
GO:0005615 extracellular space


-  Descriptions from all associated GenBank mRNAs
  Y08135 - M.musculus mRNA for ASM-like phosphodiesterase 3a.
AK002455 - Mus musculus adult male kidney cDNA, RIKEN full-length enriched library, clone:0610010C24 product:acid sphingomyelinase-like phosphodiesterase 3a, full insert sequence.
AK152282 - Mus musculus bone marrow macrophage cDNA, RIKEN full-length enriched library, clone:I830058G20 product:sphingomyelin phosphodiesterase, acid-like 3A, full insert sequence.
BC139288 - Mus musculus sphingomyelin phosphodiesterase, acid-like 3A, mRNA (cDNA clone MGC:170915 IMAGE:8862310), complete cds.
BC139289 - Mus musculus sphingomyelin phosphodiesterase, acid-like 3A, mRNA (cDNA clone MGC:170916 IMAGE:8862311), complete cds.
AK151683 - Mus musculus bone marrow macrophage cDNA, RIKEN full-length enriched library, clone:I830033L07 product:sphingomyelin phosphodiesterase, acid-like 3A, full insert sequence.
AK194592 - Mus musculus cDNA, clone:Y1G0115N04, strand:plus, reference:ENSEMBL:Mouse-Transcript-ENST:ENSMUST00000020022, based on BLAT search.
AK194580 - Mus musculus cDNA, clone:Y1G0115M11, strand:plus, reference:ENSEMBL:Mouse-Transcript-ENST:ENSMUST00000020022, based on BLAT search.
AK205531 - Mus musculus cDNA, clone:Y2G0102A05, strand:plus, reference:ENSEMBL:Mouse-Transcript-ENST:ENSMUST00000020022, based on BLAT search.
AK185060 - Mus musculus cDNA, clone:Y0G0132H15, strand:plus, reference:ENSEMBL:Mouse-Transcript-ENST:ENSMUST00000020022, based on BLAT search.
AK196251 - Mus musculus cDNA, clone:Y1G0121E07, strand:minus, reference:ENSEMBL:Mouse-Transcript-ENST:ENSMUST00000020022, based on BLAT search.
AK194237 - Mus musculus cDNA, clone:Y1G0114L08, strand:plus, reference:ENSEMBL:Mouse-Transcript-ENST:ENSMUST00000020022, based on BLAT search.
AK196668 - Mus musculus cDNA, clone:Y1G0122I16, strand:plus, reference:ENSEMBL:Mouse-Transcript-ENST:ENSMUST00000020022, based on BLAT search.
AK203180 - Mus musculus cDNA, clone:Y1G0144A22, strand:plus, reference:ENSEMBL:Mouse-Transcript-ENST:ENSMUST00000020022, based on BLAT search.

-  Other Names for This Gene
  Alternate Gene Symbols: ASM3A_MOUSE, Asml3a, NM_020561, P70158, Q3U8C2, uc007fcu.1, uc007fcu.2
UCSC ID: uc007fcu.2
RefSeq Accession: NM_020561
Protein: P70158 (aka ASM3A_MOUSE or AS3A_MOUSE)
CCDS: CCDS23857.1

-  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.