U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from GEO Profiles

    • Showing Current items.

    Sgms1 sphingomyelin synthase 1 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 353229, updated on 6-Jun-2024

    Summary

    Go to the top of the page Help
    Official Symbol
    Sgms1provided by RGD
    Official Full Name
    sphingomyelin synthase 1provided by RGD
    Primary source
    RGD:727912
    See related
    Ensembl:ENSRNOG00000012536 AllianceGenome:RGD:727912
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Also known as
    Mob; mob-1; Tmem23
    Summary
    Predicted to enable ceramide cholinephosphotransferase activity; ceramide phosphoethanolamine synthase activity; and sphingomyelin synthase activity. Involved in several processes, including cellular response to lipopolysaccharide; cellular response to tumor necrosis factor; and inflammatory response. Predicted to be located in Golgi trans cisterna. Predicted to be integral component of Golgi membrane; integral component of endoplasmic reticulum membrane; and integral component of plasma membrane. Used to study pulmonary edema. Biomarker of pulmonary edema. Orthologous to human SGMS1 (sphingomyelin synthase 1). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in Testes (RPKM 378.2), Kidney (RPKM 279.5) and 9 other tissues See more
    Orthologs
    human mouse all
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    Go to the top of the page Help
    See Sgms1 in Genome Data Viewer
    Location:
    1q52
    Exon count:
    28
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 1 NC_086019.1 (239409991..239681195, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 1 NC_051336.1 (229996673..230259591, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 1 NC_005100.4 (250692448..250951685, complement)

    Chromosome 1 - NC_086019.1Genomic Context describing neighboring genes Neighboring gene APOBEC1 complementation factor Neighboring gene N-acylsphingosine amidohydrolase 2 Neighboring gene small nucleolar RNA SNORA48 Neighboring gene nuclear transport factor 2, pseudogene 1

    Genomic regions, transcripts, and products

    Go to the top of the page Help

    Go to nucleotide: Graphics FASTA GenBank

    Expression

    Go to the top of the page Help
    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
    • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
    • BioProject: PRJNA238328
    • Publication: PMID 24510058
    • Analysis date: Mon Jun 6 17:44:12 2016

    Bibliography

    Go to the top of the pageHelp

    Related articles in PubMed

    1. Developmental stage-specific expression of genes for sphingomyelin synthase in rat brain. Filippenkov IB, et al. Cell Tissue Res, 2018 Apr. PMID 29294205
    2. The mouse sphingomyelin synthase 1 (SMS1) gene is alternatively spliced to yield multiple transcripts and proteins. Yang Z, et al. Gene, 2005 Dec 19. PMID 16226406
    3. MOB-1 and TNF-alpha interact to induce microvascular lung injury. Rabinovici R, et al. Shock, 2002 Sep. PMID 12353928
    4. Circular RNA of the human sphingomyelin synthase 1 gene: Multiple splice variants, evolutionary conservatism and expression in different tissues. Filippenkov IB, et al. RNA Biol, 2015. PMID 26274505, Free PMC Article
    5. Expression cloning of a human cDNA restoring sphingomyelin synthesis and cell growth in sphingomyelin synthase-defective lymphoid cells. Yamaoka S, et al. J Biol Chem, 2004 Apr 30. PMID 14976195

    See all (12) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. in contrast to Sgms1, Sgms2 does not contain the multi-exon 5'-UTR but encodes circRNAs, which are composed of the coding region of the gene and are expressed at a low level.
      Title: Developmental stage-specific expression of genes for sphingomyelin synthase in rat brain.
    2. SMS1 and SMS2 are capable of regulating TGN-mediated protein trafficking and secretion
      Title: Sphingomyelin synthases regulate protein trafficking and secretion.
    3. mob-1 and TNF-alpha interact to promote lung inflammation
      Title: MOB-1 and TNF-alpha interact to induce microvascular lung injury.
    Submit: New GeneRIF Correction

    Pathways from PubChem

    Go to the top of the page

    General gene information

    Go to the top of the page Help

    Markers

    Homology

    Clone Names

    • MGC93062

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables ceramide cholinephosphotransferase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables ceramide cholinephosphotransferase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables ceramide cholinephosphotransferase activity ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    enables ceramide phosphoethanolamine synthase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables kinase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables phosphotransferase activity, for other substituted phosphate groups IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables sphingomyelin synthase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables sphingomyelin synthase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables sphingomyelin synthase activity ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    Process Evidence Code Pubs
    involved_in apoptotic process IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in cellular response to lipopolysaccharide IEP
    Inferred from Expression Pattern
    more info
    		 PubMed 
    involved_in cellular response to tumor necrosis factor IEP
    Inferred from Expression Pattern
    more info
    		 PubMed 
    involved_in ceramide biosynthetic process IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within ceramide biosynthetic process ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in lipid metabolic process IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in positive regulation of gene expression IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in sphingomyelin biosynthetic process IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in sphingomyelin biosynthetic process ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in sphingomyelin biosynthetic process ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    Component Evidence Code Pubs
    is_active_in Golgi membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in Golgi membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in Golgi membrane ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in Golgi membrane ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    located_in Golgi trans cisterna ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in endoplasmic reticulum membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    is_active_in plasma membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

    Go to the top of the page Help
    Preferred Names
    phosphatidylcholine:ceramide cholinephosphotransferase 1
    Names
    protein Mob
    transmembrane protein 23
    NP_852051.2
    XP_038936909.1
    XP_038936911.1
    XP_038936916.1
    XP_038936922.1
    XP_038936925.1
    XP_038936926.1
    XP_038936929.1
    XP_038936937.1
    XP_038936942.1
    XP_038936946.1
    XP_063121795.1
    XP_063121800.1
    XP_063121802.1
    XP_063121807.1
    XP_063121810.1
    XP_063121813.1
    XP_063121819.1
    XP_063121824.1
    XP_063121829.1
    XP_063121834.1
    XP_063121837.1
    XP_063121840.1
    XP_063121846.1
    XP_063121847.1
    XP_063121851.1
    XP_063121856.1
    XP_063121860.1
    XP_063121863.1
    XP_063121867.1
    XP_063121876.1
    XP_063121886.1
    XP_063121889.1
    XP_063121892.1
    XP_063121893.1
    XP_063121901.1
    XP_063121906.1
    XP_063121908.1

    NCBI Reference Sequences (RefSeq)

    Go to the top of the page Help

    NEW Try the new Transcript table

    RefSeqs maintained independently of Annotated Genomes

    These reference sequences exist independently of genome builds. Explain

    These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

    mRNA and Protein(s)

    1. NM_181386.3 → NP_852051.2  phosphatidylcholine:ceramide cholinephosphotransferase 1

      See identical proteins and their annotated locations for NP_852051.2

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000001
      UniProtKB/Swiss-Prot
      Q7TSX5
      UniProtKB/TrEMBL
      A6I104
      Related
      ENSRNOP00000051643.1, ENSRNOT00000054761.2
      Conserved Domains (2) summary
      cd09514
      Location:7 → 78
      SAM_SGMS1; SAM domain of sphingomyelin synthase
      pfam14360
      Location:282 → 355
      PAP2_C; PAP2 superfamily C-terminal

    RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCr8

    Genomic

    1. NC_086019.1 Reference GRCr8

      Range
      239409991..239681195 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_063265797.1 → XP_063121867.1  phosphatidylcholine:ceramide cholinephosphotransferase 1 isoform X1

      UniProtKB/Swiss-Prot
      Q7TSX5
      UniProtKB/TrEMBL
      A6I104

    2. XM_063265725.1 → XP_063121795.1  phosphatidylcholine:ceramide cholinephosphotransferase 1 isoform X1

      UniProtKB/Swiss-Prot
      Q7TSX5
      UniProtKB/TrEMBL
      A6I104

    3. XM_063265790.1 → XP_063121860.1  phosphatidylcholine:ceramide cholinephosphotransferase 1 isoform X1

      UniProtKB/Swiss-Prot
      Q7TSX5
      UniProtKB/TrEMBL
      A6I104

    4. XM_063265754.1 → XP_063121824.1  phosphatidylcholine:ceramide cholinephosphotransferase 1 isoform X1

      UniProtKB/Swiss-Prot
      Q7TSX5
      UniProtKB/TrEMBL
      A6I104

    5. XM_063265770.1 → XP_063121840.1  phosphatidylcholine:ceramide cholinephosphotransferase 1 isoform X1

      UniProtKB/Swiss-Prot
      Q7TSX5
      UniProtKB/TrEMBL
      A6I104

    6. XM_063265743.1 → XP_063121813.1  phosphatidylcholine:ceramide cholinephosphotransferase 1 isoform X1

      UniProtKB/Swiss-Prot
      Q7TSX5
      UniProtKB/TrEMBL
      A6I104

    7. XM_039080997.2 → XP_038936925.1  phosphatidylcholine:ceramide cholinephosphotransferase 1 isoform X1

      UniProtKB/Swiss-Prot
      Q7TSX5
      UniProtKB/TrEMBL
      A6I104
      Conserved Domains (2) summary
      cd09514
      Location:7 → 78
      SAM_SGMS1; SAM domain of sphingomyelin synthase
      pfam14360
      Location:282 → 355
      PAP2_C; PAP2 superfamily C-terminal

    8. XM_039080981.2 → XP_038936909.1  phosphatidylcholine:ceramide cholinephosphotransferase 1 isoform X1

      UniProtKB/Swiss-Prot
      Q7TSX5
      UniProtKB/TrEMBL
      A6I104
      Conserved Domains (2) summary
      cd09514
      Location:7 → 78
      SAM_SGMS1; SAM domain of sphingomyelin synthase
      pfam14360
      Location:282 → 355
      PAP2_C; PAP2 superfamily C-terminal

    9. XM_063265737.1 → XP_063121807.1  phosphatidylcholine:ceramide cholinephosphotransferase 1 isoform X1

      UniProtKB/Swiss-Prot
      Q7TSX5
      UniProtKB/TrEMBL
      A6I104

    10. XM_039080994.2 → XP_038936922.1  phosphatidylcholine:ceramide cholinephosphotransferase 1 isoform X1

      UniProtKB/Swiss-Prot
      Q7TSX5
      UniProtKB/TrEMBL
      A6I104
      Conserved Domains (2) summary
      cd09514
      Location:7 → 78
      SAM_SGMS1; SAM domain of sphingomyelin synthase
      pfam14360
      Location:282 → 355
      PAP2_C; PAP2 superfamily C-terminal

    11. XM_063265730.1 → XP_063121800.1  phosphatidylcholine:ceramide cholinephosphotransferase 1 isoform X1

      UniProtKB/Swiss-Prot
      Q7TSX5
      UniProtKB/TrEMBL
      A6I104

    12. XM_063265732.1 → XP_063121802.1  phosphatidylcholine:ceramide cholinephosphotransferase 1 isoform X1

      UniProtKB/Swiss-Prot
      Q7TSX5
      UniProtKB/TrEMBL
      A6I104

    13. XM_063265759.1 → XP_063121829.1  phosphatidylcholine:ceramide cholinephosphotransferase 1 isoform X1

      UniProtKB/Swiss-Prot
      Q7TSX5
      UniProtKB/TrEMBL
      A6I104

    14. XM_063265767.1 → XP_063121837.1  phosphatidylcholine:ceramide cholinephosphotransferase 1 isoform X1

      UniProtKB/Swiss-Prot
      Q7TSX5
      UniProtKB/TrEMBL
      A6I104

    15. XM_063265793.1 → XP_063121863.1  phosphatidylcholine:ceramide cholinephosphotransferase 1 isoform X1

      UniProtKB/Swiss-Prot
      Q7TSX5
      UniProtKB/TrEMBL
      A6I104

    16. XM_063265764.1 → XP_063121834.1  phosphatidylcholine:ceramide cholinephosphotransferase 1 isoform X1

      UniProtKB/Swiss-Prot
      Q7TSX5
      UniProtKB/TrEMBL
      A6I104

    17. XM_039080983.2 → XP_038936911.1  phosphatidylcholine:ceramide cholinephosphotransferase 1 isoform X1

      UniProtKB/Swiss-Prot
      Q7TSX5
      UniProtKB/TrEMBL
      A6I104
      Conserved Domains (2) summary
      cd09514
      Location:7 → 78
      SAM_SGMS1; SAM domain of sphingomyelin synthase
      pfam14360
      Location:282 → 355
      PAP2_C; PAP2 superfamily C-terminal

    18. XM_039080988.2 → XP_038936916.1  phosphatidylcholine:ceramide cholinephosphotransferase 1 isoform X1

      UniProtKB/Swiss-Prot
      Q7TSX5
      UniProtKB/TrEMBL
      A6I104
      Conserved Domains (2) summary
      cd09514
      Location:7 → 78
      SAM_SGMS1; SAM domain of sphingomyelin synthase
      pfam14360
      Location:282 → 355
      PAP2_C; PAP2 superfamily C-terminal

    19. XM_063265781.1 → XP_063121851.1  phosphatidylcholine:ceramide cholinephosphotransferase 1 isoform X1

      UniProtKB/Swiss-Prot
      Q7TSX5
      UniProtKB/TrEMBL
      A6I104

    20. XM_063265776.1 → XP_063121846.1  phosphatidylcholine:ceramide cholinephosphotransferase 1 isoform X1

      UniProtKB/Swiss-Prot
      Q7TSX5
      UniProtKB/TrEMBL
      A6I104

    21. XM_063265777.1 → XP_063121847.1  phosphatidylcholine:ceramide cholinephosphotransferase 1 isoform X1

      UniProtKB/Swiss-Prot
      Q7TSX5
      UniProtKB/TrEMBL
      A6I104

    22. XM_063265740.1 → XP_063121810.1  phosphatidylcholine:ceramide cholinephosphotransferase 1 isoform X1

      UniProtKB/Swiss-Prot
      Q7TSX5
      UniProtKB/TrEMBL
      A6I104

    23. XM_063265786.1 → XP_063121856.1  phosphatidylcholine:ceramide cholinephosphotransferase 1 isoform X1

      UniProtKB/Swiss-Prot
      Q7TSX5
      UniProtKB/TrEMBL
      A6I104

    24. XM_063265749.1 → XP_063121819.1  phosphatidylcholine:ceramide cholinephosphotransferase 1 isoform X1

      UniProtKB/Swiss-Prot
      Q7TSX5
      UniProtKB/TrEMBL
      A6I104

    25. XM_039080998.2 → XP_038936926.1  phosphatidylcholine:ceramide cholinephosphotransferase 1 isoform X1

      UniProtKB/Swiss-Prot
      Q7TSX5
      UniProtKB/TrEMBL
      A6I104
      Conserved Domains (2) summary
      cd09514
      Location:7 → 78
      SAM_SGMS1; SAM domain of sphingomyelin synthase
      pfam14360
      Location:282 → 355
      PAP2_C; PAP2 superfamily C-terminal

    26. XM_039081001.2 → XP_038936929.1  phosphatidylcholine:ceramide cholinephosphotransferase 1 isoform X1

      UniProtKB/Swiss-Prot
      Q7TSX5
      UniProtKB/TrEMBL
      A6I104
      Conserved Domains (2) summary
      cd09514
      Location:7 → 78
      SAM_SGMS1; SAM domain of sphingomyelin synthase
      pfam14360
      Location:282 → 355
      PAP2_C; PAP2 superfamily C-terminal

    27. XM_039081009.2 → XP_038936937.1  phosphatidylcholine:ceramide cholinephosphotransferase 1 isoform X1

      UniProtKB/Swiss-Prot
      Q7TSX5
      UniProtKB/TrEMBL
      A6I104
      Conserved Domains (2) summary
      cd09514
      Location:7 → 78
      SAM_SGMS1; SAM domain of sphingomyelin synthase
      pfam14360
      Location:282 → 355
      PAP2_C; PAP2 superfamily C-terminal

    28. XM_063265806.1 → XP_063121876.1  phosphatidylcholine:ceramide cholinephosphotransferase 1 isoform X2

    29. XM_063265838.1 → XP_063121908.1  phosphatidylcholine:ceramide cholinephosphotransferase 1 isoform X4

      UniProtKB/TrEMBL
      A0A0G2JYM5, A6I105

    30. XM_063265836.1 → XP_063121906.1  phosphatidylcholine:ceramide cholinephosphotransferase 1 isoform X4

      UniProtKB/TrEMBL
      A0A0G2JYM5, A6I105

    31. XM_063265822.1 → XP_063121892.1  phosphatidylcholine:ceramide cholinephosphotransferase 1 isoform X3

      UniProtKB/TrEMBL
      A0A0G2JYM5, A6I105

    32. XM_063265816.1 → XP_063121886.1  phosphatidylcholine:ceramide cholinephosphotransferase 1 isoform X3

      UniProtKB/TrEMBL
      A0A0G2JYM5, A6I105

    33. XM_039081014.2 → XP_038936942.1  phosphatidylcholine:ceramide cholinephosphotransferase 1 isoform X3

      UniProtKB/TrEMBL
      A0A0G2JYM5, A6I105
      Conserved Domains (1) summary
      cd09514
      Location:7 → 78
      SAM_SGMS1; SAM domain of sphingomyelin synthase

    34. XM_063265819.1 → XP_063121889.1  phosphatidylcholine:ceramide cholinephosphotransferase 1 isoform X3

      UniProtKB/TrEMBL
      A0A0G2JYM5, A6I105

    35. XM_063265823.1 → XP_063121893.1  phosphatidylcholine:ceramide cholinephosphotransferase 1 isoform X3

      UniProtKB/TrEMBL
      A0A0G2JYM5, A6I105

    36. XM_063265831.1 → XP_063121901.1  phosphatidylcholine:ceramide cholinephosphotransferase 1 isoform X3

      UniProtKB/TrEMBL
      A0A0G2JYM5, A6I105

    37. XM_039081018.2 → XP_038936946.1  phosphatidylcholine:ceramide cholinephosphotransferase 1 isoform X5

      UniProtKB/TrEMBL
      A0A0G2JYM5, A6I105
      Conserved Domains (1) summary
      cd09514
      Location:7 → 78
      SAM_SGMS1; SAM domain of sphingomyelin synthase

    RNA

    1. XR_005487755.2 RNA Sequence

    2. XR_010053998.1 RNA Sequence

    3. XR_010054000.1 RNA Sequence

    4. XR_010053999.1 RNA Sequence

    5. XR_010054001.1 RNA Sequence

    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q7TSX5.2 GenPept UniProtKB/Swiss-Prot:Q7TSX5

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

    Chemical Information
    Molecular Biology Databases
    Research Materials
    Tools
    Miscellaneous