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SGMS1 Gene

protein-coding   GIFtS: 60
GCID: GC10M052065

Sphingomyelin Synthase 1

(Previous name: transmembrane protein 23)
(Previous symbol: TMEM23)
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Aliases
for SGMS1 gene

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, 10fRNAdb, 12H-InvDB, 13NCBI, 14NONCODE, and/or 15RNAdb)
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Aliases
Sphingomyelin Synthase 11 2 3     Protein Mob2 3
TMEM231 2 3 5     EC 2.7.8.273 8
Transmembrane Protein 231 2 3     MOB12
MOB2 3 5     hmob332
SMS12 3 5     Phosphatidylcholine:Ceramide Cholinephosphotransferase 12
Medulla Oblongata-Derived Protein2 3     

External Ids:    HGNC: 297991   Entrez Gene: 2592302   Ensembl: ENSG000001989647   OMIM: 6115735   UniProtKB: Q86VZ53   

Export aliases for SGMS1 gene to outside databases

Previous GC identifers: GC10M051736 GC10M046064


Summaries
for SGMS1 gene

(According to Entrez Gene, GeneCards, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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Entrez Gene summary for SGMS1 Gene:
The protein encoded by this gene is predicted to be a five-pass transmembrane protein. This gene may be
predominately expressed in brain. (provided by RefSeq, Jul 2008)

GeneCards Summary for SGMS1 Gene:
SGMS1 (sphingomyelin synthase 1) is a protein-coding gene. Diseases associated with SGMS1 include choroiditis, and ataxia. GO annotations related to this gene include ceramide cholinephosphotransferase activity and kinase activity. An important paralog of this gene is SGMS2.

UniProtKB/Swiss-Prot: SMS1_HUMAN, Q86VZ5
Function: Sphingomyelin synthases synthesize the sphingolipid, sphingomyelin, through transfer of the phosphatidyl
head group, phosphatidylcholine, on to the primary hydroxyl of ceramide. The reaction is bidirectional depending
on the respective levels of the sphingolipid and ceramide. Golgi apparatus SMS1 directly and specifically
recognizes the choline head group on the substrate, requiring two fatty chains on the choline-P donor molecule in
order to be recognized efficiently as a substrate. Major form in macrophages. Required for cell growth in certain
cell types such as HeLa cells. Suppresses BAX-mediated apoptosis and also prevents cell death in response to
stimuli such as hydrogen peroxide, osmotic stress, elevated temperature and exogenously supplied sphingolipids.
May protect against cell death by reversing the stress-inducible increase in levels of proapoptotic ceramide

Gene Wiki entry for SGMS1 Gene


Genomic Views
for SGMS1 gene

(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 37),
and/or miRBase,
Genomic Views according to UCSC (hg19) and Ensembl (release 75), Regulatory elements and Epigenetics data according to QIAGEN, and/or SwitchGear Genomics)
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RefSeq DNA sequence:
NC_000010.11  NT_030059.14  NC_018921.2  
Regulatory elements:
   Regulatory transcription factor binding sites in the SGMS1 gene promoter:
         MAZR   AP-2alpha isoform 3   p300   Lmo2   Nkx2-5   AP-2alpha isoform 2   S8   AP-2alpha isoform 4   AP-2alpha   AP-2alphaA   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmid: SGMS1 promoter sequence
   Search Chromatin IP Primers for SGMS1

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat SGMS1


Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track

Entrez Gene cytogenetic band: 10q11.2   Ensembl cytogenetic band:  10q11.23   HGNC cytogenetic band: 10q11.2

SGMS1 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
SGMS1 gene location

GeneLoc information about chromosome 10         GeneLoc Exon Structure

GeneLoc location for GC10M052065:  view genomic region     (about GC identifiers)

Start:
 52,065,345 bp from pter      End:
 52,384,923 bp from pter
Size:
 319,579 bases      Orientation:
 minus strand

Proteins
for SGMS1 gene

(According to 1UniProtKB, HORDE, 2neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from EMD Millipore, R&D Systems, GenScript, Enzo Life Sciences, OriGene, Novus Biologicals, Sino Biological, ProSpec, and/or Cloud-Clone Corp.,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Cloud-Clone Corp., Antibodies by EMD Millipore, R&D Systems, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, and/or Cloud-Clone Corp.)
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UniProtKB/Swiss-Prot: SMS1_HUMAN, Q86VZ5 (See protein sequence)
Recommended Name: Phosphatidylcholine:ceramide cholinephosphotransferase 1  
Size: 419 amino acids; 49208 Da
Miscellaneous: Overexpression of the human protein in mouse causes increased non-HDL-sphingomyelin and non-HDL
cholesterol levels, decreased HDL-sphingomyelin and HDL-cholesterol levels and increases lipoprotein atherogenic
potential
Sequence caution: Sequence=AAH42899.1; Type=Miscellaneous discrepancy; Note=Unusual initiator. The initiator
methionine is coded by a non-canonical CTG leucine codon; Sequence=AAP37279.1; Type=Miscellaneous discrepancy;
Note=Unusual initiator. The initiator methionine is coded by a non-canonical CTG leucine codon;
Sequence=AAQ22363.1; Type=Miscellaneous discrepancy; Note=Unusual initiator. The initiator methionine is coded by
a non-canonical CTG leucine codon; Sequence=AAQ82051.1; Type=Miscellaneous discrepancy; Note=Unusual initiator.
The initiator methionine is coded by a non-canonical CTG leucine codon; Sequence=AK026683; Type=Miscellaneous
discrepancy; Note=Unusual initiator. The initiator methionine is coded by a non-canonical CTG leucine codon;
Sequence=BAD16809.1; Type=Miscellaneous discrepancy; Note=Unusual initiator. The initiator methionine is coded by
a non-canonical CTG leucine codon; Sequence=CAD79708.1; Type=Miscellaneous discrepancy; Note=Unusual initiator.
The initiator methionine is coded by a non-canonical CTG leucine codon;
Secondary accessions: Q68U43 Q6EKK0 Q75SP1
Alternative splicing: 2 isoforms:  Q86VZ5-1   Q86VZ5-2   

Explore the universe of human proteins at neXtProt for SGMS1: NX_Q86VZ5

Explore proteomics data for SGMS1 at MOPED

Post-translational modifications: 

  • Modification sites at neXtProt
  • Modification sites at PhosphoSitePlus
    • Selected DME Specific Peptides for SGMS1 (Q86VZ5) (see all 15)
     EAHKNGH  MIETLKM  PEYCEPL  PDGSFSIK 


    See SGMS1 Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

    REFSEQ proteins: NP_671512.1  
    ENSEMBL proteins: 
     ENSP00000354829   ENSP00000473668   ENSP00000475427   ENSP00000406795   ENSP00000355235  
    Reactome Protein details: Q86VZ5

    SGMS1 Human Recombinant Protein Products:

    Browse Purified and Recombinant Proteins at EMD Millipore
    Browse R&D Systems for human recombinant proteins
    Browse recombinant and purified proteins available from Enzo Life Sciences
    Browse OriGene full length recombinant human proteins expressed in human HEK293 cells
    OriGene Protein Over-expression Lysate for SGMS1
    OriGene Custom MassSpec
    OriGene Custom Protein Services for SGMS1
    GenScript Custom Purified and Recombinant Proteins Services for SGMS1
    Novus Biologicals SGMS1 Protein
    Browse Sino Biological Recombinant Proteins
    Browse Sino Biological Cell Lysates
    Browse ProSpec Recombinant Proteins
    Cloud-Clone Corp. Proteins for SGMS1

    SGMS1 Antibody Products:

    Browse EMD Millipore's Extensive Line of Mono- and Polyclonal Antibodies
    Browse R&D Systems for Antibodies
    Browse OriGene Antibodies
    OriGene Custom Antibody Services for SGMS1
    Novus Biologicals SGMS1 Antibodies
    Search for Antibodies for SGMS1 at Abcam
    Cloud-Clone Corp. Antibodies for SGMS1
    ThermoFisher Antibodies for SGMS1
    LSBio Antibodies in human, mouse, rat for SGMS1

    SGMS1 Assay Products:

    Browse Kits and Assays available from EMD Millipore
    OriGene Custom Assay Services for SGMS1
    Browse R&D Systems for biochemical assays
    GenScript Custom Assay Services for SGMS1
    Browse Enzo Life Sciences for kits & assays
    Cloud-Clone Corp. ELISAs for SGMS1
    Cloud-Clone Corp. CLIAs for SGMS1

    Domains /
    Families
    for SGMS1 gene

    (According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
    About This Section

    TryGeneCards Plus    		 HGNC Gene Families:
    SAMD: Sterile alpha motif (SAM) domain containing

    4 InterPro protein domains:
     IPR021129 SAM_type1
     IPR025749 Sphingomyelin_synth-like_dom
     IPR013761 SAM/pointed
     IPR001660 SAM

    Graphical View of Domain Structure for InterPro Entry Q86VZ5

    ProtoNet protein and cluster: Q86VZ5

    1 Blocks protein domain: IPB001660 Sterile alpha motif SAM

    UniProtKB/Swiss-Prot: SMS1_HUMAN, Q86VZ5
    Similarity: Belongs to the sphingomyelin synthase family
    Similarity: Contains 1 SAM (sterile alpha motif) domain


    SGMS1 for domains           About GeneDecksing


    Function
    for SGMS1 gene

    (According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, inGenious Targeting Laboratory, genOway,
    transcription factor targeting from QIAGEN and/or HOMER, miRNA Gene Targets from miRTarBase, shRNA from OriGene, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, SwitchGear Genomics, Gene Editing from DNA2.0, Clones from OriGene, GenScript, Sino Biological, DNA2.0, and Vector BioLabs, Cell Lines from GenScript, ESI BIO, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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    Molecular Function:

         UniProtKB/Swiss-Prot Summary: SMS1_HUMAN, Q86VZ5
    Function: Sphingomyelin synthases synthesize the sphingolipid, sphingomyelin, through transfer of the phosphatidyl
    head group, phosphatidylcholine, on to the primary hydroxyl of ceramide. The reaction is bidirectional depending
    on the respective levels of the sphingolipid and ceramide. Golgi apparatus SMS1 directly and specifically
    recognizes the choline head group on the substrate, requiring two fatty chains on the choline-P donor molecule in
    order to be recognized efficiently as a substrate. Major form in macrophages. Required for cell growth in certain
    cell types such as HeLa cells. Suppresses BAX-mediated apoptosis and also prevents cell death in response to
    stimuli such as hydrogen peroxide, osmotic stress, elevated temperature and exogenously supplied sphingolipids.
    May protect against cell death by reversing the stress-inducible increase in levels of proapoptotic ceramide
    Catalytic activity: A ceramide + a phosphatidylcholine = a sphingomyelin + a 1,2-diacyl-sn-glycerol
    Enzyme regulation: Inhibited by bacterial PC-phospholipase C inhibitor D609

         Enzyme Number (IUBMB): EC 2.7.8.271 2

         Gene Ontology (GO): Selected molecular function terms (see all 6):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0003824catalytic activity ----
    GO:0005515protein binding ----
    GO:0016301kinase activity IEA--
    GO:0016740transferase activity ----
    GO:0033188sphingomyelin synthase activity IMP14976195
         
    SGMS1 for ontologies           About GeneDecksing


    Phenotypes:
         1 GenomeRNAi human phenotype for SGMS1:
     Synthetic lethal with Ras 

         9 MGI mutant phenotypes (inferred from 2 alleles) (MGI details for Sgms1):
     adipose tissue  cellular  endocrine/exocrine gland  growth/size/body  hematopoietic system 
     homeostasis/metabolism  immune system  mortality/aging  reproductive system 

    SGMS1 for phenotypes           About GeneDecksing

    Animal Models:
         MGI mouse knock-out Sgms1tm1Kenw for SGMS1

       inGenious Targeting Laboratory: Let us create your new Knockout/Knockin mouse model for SGMS1
       inGenious Targeting Laboratory: Contact us about creating complex and humanized mouse models for SGMS1

       genOway customized KO model: permanent, tissue-specific or time-controlled inactivation for SGMS1
       genOway customized Knockin model: humanization, point mutation, expression monitoring, etc. for SGMS1

    miRNA
    Products:            		miRTarBase miRNAs that target SGMS1:
    hsa-mir-33a-5p (MIRT028233), hsa-mir-93-5p (MIRT028169), hsa-mir-744-5p (MIRT037396), hsa-mir-130b-3p (MIRT020298), hsa-mir-98-5p (MIRT027614), hsa-mir-124-3p (MIRT022767)

    Block miRNA regulation of human, mouse, rat SGMS1 using miScript Target Protectors
    Selected qRT-PCR Assays for microRNAs that regulate SGMS1 (see all 34):
    hsa-miR-4307 hsa-miR-875-3p hsa-miR-520d-5p hsa-miR-376b hsa-miR-24-1* hsa-miR-128 hsa-miR-507 hsa-miR-4260
    SwitchGear 3'UTR luciferase reporter plasmid: SGMS1 3' UTR sequence
    Inhib. RNA
    Products:            		OriGene RNAi products in human, mouse, rat for SGMS1
    Predesigned siRNA for gene silencing in human, mouse, rat SGMS1

    Gene Editing
    Products:    		DNA2.0 Custom Protein Engineering Service for SGMS1

    Clone
    Products:             		 OriGene clones in human, mouse for SGMS1 (see all 8)
    OriGene ORF clones in mouse, rat for SGMS1
    OriGene custom cloning services - gene synthesis, subcloning, mutagenesis, variant library, vector shuttling
    GenScript: all cDNA clones in your preferred vector: SGMS1 (NM_147156)
    Sino Biological Human cDNA Clone for SGMS1
    DNA2.0 Custom Codon Optimized Gene Synthesis Service for SGMS1
    Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat SGMS1

    Cell Line
    Products:             		GenScript Custom overexpressing Cell Line Services for SGMS1
    Browse ESI BIO Cell Lines and PureStem Progenitors for SGMS1 
    In Situ Assay
    Products:       
         		Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for SGMS1


    Localization
    for SGMS1 gene

    (According to UniProtKB, COMPARTMENTS Subcellular localization database, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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    Subcellular locations from UniProtKB/Swiss-Prot
    SMS1_HUMAN, Q86VZ5: Golgi apparatus membrane; Multi-pass membrane protein
    Subcellular locations from COMPARTMENTS: 

    CompartmentConfidence
    golgi apparatus5
    endoplasmic reticulum4
    nucleus4
    plasma membrane4
    peroxisome3
    cytosol1
    endosome1

    Gene Ontology (GO): Selected cellular component terms (see all 8):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0000138Golgi trans cisterna IDA14685263
    GO:0000139Golgi membrane TAS--
    GO:0005634nucleus TAS14976195
    GO:0005783endoplasmic reticulum TAS14976195
    GO:0005886plasma membrane TAS14976195

    SGMS1 for ontologies           About GeneDecksing


    Pathways & Interactions
    for SGMS1 gene

    (SuperPaths according to PathCards, Pathways according to R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Sino Biological, Reactome, Tocris Bioscience, GeneGo (Thomson Reuters), QIAGEN, and/or UniProtKB, Sets of similar genes according to GeneDecks, Interaction Networks according to QIAGEN, and/or STRING, Interactions according to 1UniProtKB, 2MINT, 3I2D, and/or 4STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene).
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    SuperPaths for SGMS1 About    
    See pathways by source

    SuperPathContained pathways About
    1Sphingolipid metabolism
    		Sphingolipid metabolism0.61
    		Sphingolipid de novo biosynthesis0.46
    		Sphingolipid metabolism0.61
    		Sphingolipid Metabolism0.42
    2Metabolism
    		Metabolism0.38
    		Metabolism of lipids and lipoproteins0.37
    		Metabolic pathways0.38
    3IL2 signaling events mediated by PI3K
    		IL2 signaling events mediated by PI3K0.34
    4COPI Mediated Transport
    		Cholesterol and Sphingolipids transport Transport from Golgi and ER to the apical membrane normal and CF 0.31
    5sphingomyelin metabolism/ceramide salvage
    		sphingomyelin metabolism/ceramide salvage

    Pathways by source                                                                                                                                                                 See SuperPaths
    Show all pathways


    1 GeneGo (Thomson Reuters) Pathway for SGMS1
        Cholesterol and Sphingolipids transport / Transport from Golgi and ER to the apical membrane (normal and CF)

    3 BioSystems Pathways for SGMS1
        Sphingolipid Metabolism
    sphingomyelin metabolism/ceramide salvage
    IL2 signaling events mediated by PI3K


    1 Reactome Pathway for SGMS1
        Sphingolipid de novo biosynthesis


    2 Kegg Pathways  (Kegg details for SGMS1):
        Sphingolipid metabolism
    Metabolic pathways


    SGMS1 for pathways           About GeneDecksing

        Custom Pathway & Disease-focused RT2 Profiler PCR Arrays for SGMS1
    Interactions:

        Search GeneGlobe Interaction Network for SGMS1

    STRING Interaction Network Preview (showing 5 interactants - click image to see 25)

    Selected Interacting proteins for SGMS1 (Q86VZ52, 3 ENSP000003548294) via UniProtKB, MINT, STRING, and/or I2D (see all 37)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    ATXN1P542532, 3, ENSP000002447694MINT-2879310 I2D: score=3 STRING: ENSP00000244769
    ASAH1ENSP000003711524STRING: ENSP00000371152
    ASAH2ENSP000003788974STRING: ENSP00000378897
    CERKENSP000002162644STRING: ENSP00000216264
    DEGS1ENSP000003164764STRING: ENSP00000316476
    About this table

    Gene Ontology (GO): Selected biological process terms (see all 12):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0006665sphingolipid metabolic process TAS--
    GO:0006686sphingomyelin biosynthetic process IDA14685263
    GO:0006915apoptotic process IEA--
    GO:0006954inflammatory response ----
    GO:0010628positive regulation of gene expression ----

    SGMS1 for ontologies           About GeneDecksing



    Drugs & Compounds
    for SGMS1 gene

    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience, ApexBio, HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB)
    About This Section

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    Browse Small Molecules at EMD Millipore
       Browse drugs & compounds from Enzo Life Sciences
      Browse compounds at ApexBio 

    Browse Tocris compounds for SGMS1 (SMS1)

    Selected HMDB Compounds for SGMS1 (see all 2027)    About this table
    CompoundSynonyms CAS #PubMed Ids
    PC(O-16:0/18:2(9Z,12Z))1-hexadecyl-2-(9Z,12Z-octadecadienoyl)-sn-glycero-3-phosphocholine (see all 5)88542-95-412486725
    Cer(d18:0/12:0) ----
    Cer(d18:0/14:0) ----
    Cer(d18:0/16:0) ----
    Cer(d18:0/18:0) ----
    Cer(d18:0/18:1(11Z)) ----
    Cer(d18:0/18:1(9Z)) ----
    Cer(d18:0/20:0) ----
    Cer(d18:0/22:0) ----
    Cer(d18:0/22:1(13Z)) ----

    4 Novoseek inferred chemical compound relationships for SGMS1 gene    About this table
    Compound   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
    ceramide 67.7 10 17467659 (3), 17616479 (2), 19779494 (2), 14976195 (1) (see all 5)
    ceramides 64.8 2 17449912 (1), 17467659 (1)
    phosphorylcholine 60.4 1 14976195 (1)
    phosphatidylcholine 43.6 2 17616479 (1), 14976195 (1)



    SGMS1 for compounds           About GeneDecksing



    Transcripts
    for SGMS1 gene

    (Secondary structures according to fRNAdb,
    GenBank/EMBL/DDBJ Accessions according to
    Unigene (Build 236 Homo sapiens; Apr 25 2013) or GenBank,
    RefSeq according to Entrez Gene,
    DOTS (version 10), and/or AceView, transcript ids from Ensembl with links to UCSC,
    Conferences by KenesGroup, exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
    siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN, SwitchGear Genomics,
    Tagged/untagged cDNA clones from OriGene, GenScript, DNA2.0, Vector BioLabs, Primers from OriGene, and/or QIAGEN )
    About This Section

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    REFSEQ mRNAs for SGMS1 gene: 
    NM_147156.3  

    Unigene Cluster for SGMS1:

    Sphingomyelin synthase 1
    Hs.654698  [show with all ESTs]
    Unigene Representative Sequence: NM_147156
    9 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000361781(uc001jje.3 uc010qhk.2 uc021pqo.1 uc009xot.1 uc021pqq.1 uc009xou.1)
    ENST00000602619 ENST00000602565 ENST00000492601 ENST00000609445 ENST00000498514
    ENST00000608287 ENST00000429490(uc021pqn.1 uc021pqr.1) ENST00000361543(uc021pqp.1)


    miRNA
    Products:             		 Block miRNA regulation of human, mouse, rat SGMS1 using miScript Target Protectors
    Selected qRT-PCR Assays for microRNAs that regulate SGMS1 (see all 34):
    hsa-miR-4307 hsa-miR-875-3p hsa-miR-520d-5p hsa-miR-376b hsa-miR-24-1* hsa-miR-128 hsa-miR-507 hsa-miR-4260
    SwitchGear 3'UTR luciferase reporter plasmid: SGMS1 3' UTR sequence
    Inhib. RNA
    Products:             		OriGene RNAi products in human, mouse, rat for SGMS1
    Predesigned siRNA for gene silencing in human, mouse, rat SGMS1
    Clone
    Products:             		 OriGene clones in human, mouse for SGMS1 (see all 8)
    OriGene ORF clones in mouse, rat for SGMS1
    OriGene custom cloning services - gene synthesis, subcloning, mutagenesis, variant library, vector shuttling
    GenScript: all cDNA clones in your preferred vector: SGMS1 (NM_147156)
    DNA2.0 Custom Codon Optimized Gene Synthesis Service for SGMS1
    Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat SGMS1
    Primer
    Products:            		OriGene qPCR primer pairs and template standards for SGMS1
    OriGene qSTAR qPCR primer pairs in human, mouse for SGMS1
    Pre-validated RT2 qPCR Primer Assay in human, mouse, rat SGMS1
      QuantiTect SYBR Green Assays in human, mouse, rat SGMS1
      QuantiFast Probe-based Assays in human, mouse, rat SGMS1

    Additional mRNA sequence: 

    AB154421.1 AK026683.1 AK296233.1 AK311737.1 AY280959.1 AY312431.1 AY332650.1 AY364088.1 
    BC042899.1 FM210200.1 FN870365.1 FN908045.1 FN908146.1 FN985166.1 FN994181.1 FR686760.1 
    Y14155.1 

    16 DOTS entries:

    DT.413379  DT.121246906  DT.95372892  DT.121246851  DT.40288006  DT.100779407  DT.121246897  DT.121246935 
    DT.121246968  DT.40246766  DT.407315  DT.91648657  DT.91799428  DT.121246914  DT.91698764  DT.95283614 

    Selected AceView cDNA sequences (see all 132):

    BM142014 BI752115 BM142153 BQ638266 AY332650 BX403213 BF445288 CK429221 
    AI452820 CK431035 AW273195 AI278714 AA282777 BQ224836 AY280959 BX100591 
    BF055346 AA459523 BQ023195 AA459293 AI358335 CK819924 BQ024370 BM141740 

    GeneLoc Exon Structure


    Expression
    for SGMS1 gene

    (RNA expression data according to H-InvDB, NONCODE, miRBase, and RNAdb, Expression images according to data from BioGPS, Illumina Human BodyMap, and CGAP SAGE, Sets of similar genes according to GeneDecks, in vivo and in vitro expression data from LifeMap Discovery™, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MaxQB, plus additional links to SOURCE, and/or BioGPS, and/or UniProtKB,
    PCR Arrays from QIAGEN, Primers from OriGene, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
    About This Section

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    SGMS1 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: TAACTCTAAG
    SGMS1 Expression
    About this image


    SGMS1 expression in embryonic tissues and stem cells    About this table
    Data from LifeMap, the Embryonic Development and Stem Cells Database
     selected tissues (see all 2) fully expand
     
     Brain (Nervous System)    fully expand to see all 2 entries
             Thalamus
     
     Neural Tube (Nervous System)
             Diencephalon
    SGMS1 Protein expression data from MOPED1, PaxDb2 and MaxQB3:     About this image

    SGMS1 Protein Expression

    SOURCE GeneReport for Unigene cluster: Hs.654698

    UniProtKB/Swiss-Prot: SMS1_HUMAN, Q86VZ5
    Tissue specificity: Brain, heart, kidney, liver, muscle and stomach

        Custom PCR Arrays for SGMS1
    Primer
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    Orthologs
    for SGMS1 gene

    (Orthologs according to 1,2HomoloGene (2older version, for species not in 1newer version), 3euGenes, 4SGD , 5MGI Mar 06 2013, with possible further links to Flybase and/or WormBase, and/or 6Ensembl pan taxonomic compara , Gene Trees according to Ensembl and TreeFam)
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    This gene was present in the common ancestor of animals.

    Orthologs for SGMS1 gene from Selected species (see all 15)    About this table
    Organism Taxonomic
    classification    		 Gene Description Human
    Similarity    		 Orthology
    Type    		 Details
    mouse
    (Mus musculus)    		 Mammalia Sgms11 , 5 sphingomyelin synthase 11, 5 94.35(n)1
    97.82(a)1    		   19 (26.68 cM)5
    2084491  NM_144792.41  NP_659041.31 
     321227275 
    chicken
    (Gallus gallus)    		 Aves SGMS11 sphingomyelin synthase 1 82.57(n)
    85.71(a)    		   378907  NM_204390.2  NP_989721.2 
    lizard
    (Anolis carolinensis)    		 Reptilia SGMS16
    		 sphingomyelin synthase 1
    		 87(a)
    		 1 ↔ 1
    		 GL343246.1(1304508-1319387)
    African clawed frog
    (Xenopus laevis)    		 Amphibia 480325942   -- 77.18(n)    48032594 
    zebrafish
    (Danio rerio)    		 Actinopterygii wufi06d092 Transcribed sequence with weak similarity to protein refNP_502169.1 (C.elegans) H21P03.3a.p [Caenorhabditis elegans] less 76.9(n)    AL920814.1 
    mosquito
    (Anopheles gambiae)    		 Insecta AgaP_AGAP0089261 AgaP_AGAP008926 52.84(n)
    47.87(a)    		   1279896  XM_319678.4  XP_319678.4 
    worm
    (Caenorhabditis elegans)    		 Secernentea sms-11 sms-1 48.03(n)
    37.63(a)    		   178072  NM_001136389.2  NP_001129861.2 


    ENSEMBL Gene Tree for SGMS1 (if available)
    TreeFam Gene Tree for SGMS1 (if available)

    Paralogs
    for SGMS1 gene

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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    Paralogs for SGMS1 gene
    SGMS22  SAMD82  
    3 SIMAP similar genes for SGMS1 using alignment to 7 protein entries:     SMS1_HUMAN (see all proteins):
    TMEM23    SGMS2    SAMD8

    SGMS1 for paralogs           About GeneDecksing



    Genomic Variants
    for SGMS1 gene

    (SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, 4UniProtKB, and DNA2.0, Linkage Disequilibrium by HapMap, Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Mutations from the Human Gene Mutation Database (HGMD), the Human Cytochrome P450 Allele Nomenclature Database, and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers, Cancer Mutation PCR Arrays and Assays, and Copy Number PCR Arrays from QIAGEN)
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    Selected SNPs for SGMS1 (see all 6088)    About this table    
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance    		Chr 10 posSequence#AA
    Chg    		TypeMore#Allele
    freq    		PopTotal
    sample    		More
    ----------
    rs1503832271,2
    		--52065053(+) TACTGA/CCAGAT 1 -- ds50010--------
    rs1928319531,2
    		--52065114(+) AAACAC/TTGTTC 1 -- ds50010--------
    rs2020987421,2
    		C--52065217(+) CAAGG-/AAAAAA 1 -- ds50010--------
    rs1378745371,2
    		--52065249(+) CCCATG/TTCAAG 1 -- ds50010--------
    rs1169314371,2
    		C,F--52065414(+) TGATCT/CAGGTA 1 -- ut311Minor allele frequency- C:0.02NA 120
    rs733289881,2
    		C,F--52065646(+) CACATT/AGGCAA 1 -- ut312Minor allele frequency- A:0.14WA 120
    rs1490364871,2
    		--52065685(+) ATGTAC/TGTTAG 1 -- ut310--------
    rs1378845791,2
    		--52065736(+) CTTTT-/AAAG  
                AAATA     		1 -- ut310--------
    rs1167052811,2
    		C,F--52065796(+) ATAACT/CAATTC 1 -- ut311Minor allele frequency- C:0.04WA 118
    rs2006838601,2
    		C--52065869(+) GGCTGG/TTNNNN 1 -- ut310--------

    HapMap Linkage Disequilibrium report for SGMS1 (52065345 - 52315345 bp, first 250kb of SGMS1)

    Structural Variations
         Database of Genomic Variants (DGV) Selected variations for SGMS1 (see all 14):    About this table    
    Variant IDTypeSubtypePubMed ID
    esv2500927CNV Deletion19546169
    esv2736629CNV Deletion23290073
    dgv139e199CNV Deletion23128226
    esv2665424CNV Deletion23128226
    esv1008534CNV Insertion20482838
    esv269942CNV Insertion20981092
    esv272512CNV Insertion20981092
    nsv469522CNV Loss16826518
    nsv467193CNV Gain19166990
    nsv521273CNV Gain19592680

    Site Specific Mutation Identification with PCR Assays
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    Disorders / Diseases
    for SGMS1 gene

    (in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Conferences by KenesGroup, Novoseek, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
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    OMIM gene information: 611573    OMIM disorders: --

    5 diseases for SGMS1:    
    About MalaCards
    choroiditis    ataxia    colorectal cancer    alzheimer's disease
    malaria


    SGMS1 for disorders           About GeneDecksing


    Congresses - knowledge worth sharing:
    Alzheimer's & Parkinson's Diseases Congress (ADPD) 18 - 22 March 2015

    2 Novoseek inferred disease relationships for SGMS1 gene    About this table

    Disease   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
    warts 65.4 2 18245354 (1), 19913529 (1)
    tumors 1.27 9 15766530 (1), 18245354 (1), 19913529 (1), 17347649 (1) (see all 5)

    Genetic Association Database (GAD): SGMS1
    Human Genome Epidemiology (HuGE) Navigator: SGMS1 (2 documents)

    Export disorders for SGMS1 gene to outside databases

    Publications
    for SGMS1 gene

    (in PubMed. Associations of this gene to articles via 1Entrez Gene, 2UniProtKB/Swiss-Prot, 3HGNC, 4GAD, 5PharmGKB, 6HMDB, 7DrugBank, 8UniProtKB/TrEMBL, 9 Novoseek, and/or 10fRNAdb)
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    PubMed articles for SGMS1 gene, integrated from 10 sources (see all 56):
    (articles sorted by number of sources associating them with SGMS1)    		    Utopia: connect your pdf to the dynamic
    world of online information

    1. Expression cloning of a human cDNA restoring sphingomyelin synthesis and cell growth in sphingomyelin synthase-defective lymphoid cells. (PubMed id 14976195)1, 2, 3, 9 Yamaoka S.... Okazaki T. (J. Biol. Chem. 2004)
    2. In vitro and in silico analysis of the predicted human MOB gene encoding a phylogenetically conserved transmembrane protein. (PubMed id 11841947)1, 2, 3 Vladychenskaya I.P.... Limborska S.A. (Biomol. Eng. 2002)
    3. Adenovirus-mediated overexpression of sphingomyelin synthases 1 and 2 increases the atherogenic potential in mice. (PubMed id 16508036)1, 2, 9 Dong J.... Jiang X.-C. (J. Lipid Res. 2006)
    4. Both sphingomyelin synthases SMS1 and SMS2 are required for sphingomyelin homeostasis and growth in human HeLa cells. (PubMed id 17449912)1, 2, 9 Tafesse F.G.... Holthuis J.C.M. (J. Biol. Chem. 2007)
    5. Personalized smoking cessation: interactions between nicotine dose, dependence and quit-success genotype score. (PubMed id 20379614)1, 4 Rose J.E....Uhl G.R. (Mol. Med. 2010)
    6. The domain responsible for sphingomyelin synthase (SMS) activity. (PubMed id 18694848)1, 2 Yeang C.... Jiang X.C. (Biochim. Biophys. Acta 2008)
    7. A scan of chromosome 10 identifies a novel locus showing strong association with late-onset Alzheimer disease. (PubMed id 16385451)1, 4 Grupe A....Goate A. (Am. J. Hum. Genet. 2006)
    8. Human gene MOB: structure specification and aspects of transcriptional activity. (PubMed id 15315829)1, 2 Vladychenskaya I.P.... Limborska S.A. (Gene 2004)
    9. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)1, 2 Gerhard D.S.... Malek J. (Genome Res. 2004)
    10. Identification of a family of animal sphingomyelin synthases. (PubMed id 14685263)1, 2 Huitema K.... Holthuis J.C. (EMBO J. 2004)

    External Searches for SGMS1 gene

    (in PubMed, OMIM, and NCBI Bookshelf)
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     ANDOR
    Aliases
    Disorders
    Free Text  
      Query String
    		PubMed
    OMIM
    NCBI Bookshelf
      (Note: In FireFox, select the above section and copy using Ctrl-C)

    Genome Databases showing SGMS1 gene

    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
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    Entrez Gene: 259230 HGNC: 29799 AceView: TMEM23 Ensembl:ENSG00000198964 euGenes: HUgn259230
    ECgene: SGMS1 Kegg: 259230 H-InvDB: SGMS1

    Other Databases showing SGMS1 gene

    (According to HUGE)
    About This Section

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    Specialized Databases showing SGMS1 gene

    (According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL, and/or others, e.g. Wikipedia and GeneReviews, via UniProtKB/Swiss-Prot)
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    NameDescription
    PharmGKB entry for SGMS1 Pharmacogenomics, SNPs, Pathways

    Intellectual Property
    for SGMS1 gene

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
    About This Section

    TryGeneCards Plus    		Patent Information for SGMS1 gene:
    Search GeneIP for patents involving SGMS1

    GeneCards and IP:
    Japan Patent Office Licenses GeneCards     European Patent Office Licenses GeneCards     Improving the IP Search



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