LOCUS       NM_029945               4619 bp    mRNA    linear   ROD 14-JAN-2025
DEFINITION  Mus musculus sphingomyelin phosphodiesterase 4 (Smpd4), transcript
            variant 1, mRNA.
ACCESSION   NM_029945
VERSION     NM_029945.4
KEYWORDS    RefSeq.
SOURCE      Mus musculus (house mouse)
  ORGANISM  Mus musculus
            Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
            Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha;
            Muroidea; Muridae; Murinae; Mus; Mus.
REFERENCE   1  (bases 1 to 4619)
  AUTHORS   Inskeep,K.A., Crase,B., Dayarathna,T. and Stottmann,R.W.
  TITLE     SMPD4-mediated sphingolipid metabolism regulates brain and primary
            cilia development
  JOURNAL   Development 151 (22) (2024)
   PUBMED   39470011
REFERENCE   2  (bases 1 to 4619)
  AUTHORS   Adams,D.J., Barlas,B., McIntyre,R.E., Salguero,I., van der
            Weyden,L., Barros,A., Vicente,J.R., Karimpour,N., Haider,A.,
            Ranzani,M., Turner,G., Thompson,N.A., Harle,V., Olvera-Leon,R.,
            Robles-Espinoza,C.D., Speak,A.O., Geisler,N., Weninger,W.J.,
            Geyer,S.H., Hewinson,J., Karp,N.A., Fu,B., Yang,F., Kozik,Z.,
            Choudhary,J., Yu,L., van Ruiten,M.S., Rowland,B.D., Lelliott,C.J.,
            Del Castillo Velasco-Herrera,M., Verstraten,R., Bruckner,L.,
            Henssen,A.G., Rooimans,M.A., de Lange,J., Mohun,T.J., Arends,M.J.,
            Kentistou,K.A., Coelho,P.A., Zhao,Y., Zecchini,H., Perry,J.R.B.,
            Jackson,S.P. and Balmus,G.
  CONSRTM   Sanger Mouse Genetics Project
  TITLE     Genetic determinants of micronucleus formation in vivo
  JOURNAL   Nature 627 (8002), 130-136 (2024)
   PUBMED   38355793
REFERENCE   3  (bases 1 to 4619)
  AUTHORS   Cheng,L.C., Baboo,S., Lindsay,C., Brusman,L.,
            Martinez-Bartolome,S., Tapia,O., Zhang,X., Yates,J.R. 3rd and
            Gerace,L.
  TITLE     Identification of new transmembrane proteins concentrated at the
            nuclear envelope using organellar proteomics of mesenchymal cells
  JOURNAL   Nucleus 10 (1), 126-143 (2019)
   PUBMED   31142202
REFERENCE   4  (bases 1 to 4619)
  AUTHORS   Ingham,N.J., Pearson,S.A., Vancollie,V.E., Rook,V., Lewis,M.A.,
            Chen,J., Buniello,A., Martelletti,E., Preite,L., Lam,C.C.,
            Weiss,F.D., Powis,Z., Suwannarat,P., Lelliott,C.J., Dawson,S.J.,
            White,J.K. and Steel,K.P.
  TITLE     Mouse screen reveals multiple new genes underlying mouse and human
            hearing loss
  JOURNAL   PLoS Biol 17 (4), e3000194 (2019)
   PUBMED   30973865
  REMARK    Publication Status: Online-Only
REFERENCE   5  (bases 1 to 4619)
  AUTHORS   Perez-Garcia,V., Fineberg,E., Wilson,R., Murray,A., Mazzeo,C.I.,
            Tudor,C., Sienerth,A., White,J.K., Tuck,E., Ryder,E.J., Gleeson,D.,
            Siragher,E., Wardle-Jones,H., Staudt,N., Wali,N., Collins,J.,
            Geyer,S., Busch-Nentwich,E.M., Galli,A., Smith,J.C., Robertson,E.,
            Adams,D.J., Weninger,W.J., Mohun,T. and Hemberger,M.
  TITLE     Placentation defects are highly prevalent in embryonic lethal mouse
            mutants
  JOURNAL   Nature 555 (7697), 463-468 (2018)
   PUBMED   29539633
REFERENCE   6  (bases 1 to 4619)
  AUTHORS   Moylan,J.S., Smith,J.D., Wolf Horrell,E.M., McLean,J.B.,
            Deevska,G.M., Bonnell,M.R., Nikolova-Karakashian,M.N. and Reid,M.B.
  TITLE     Neutral sphingomyelinase-3 mediates TNF-stimulated oxidant activity
            in skeletal muscle
  JOURNAL   Redox Biol 2, 910-920 (2014)
   PUBMED   25180167
  REMARK    Publication Status: Online-Only
REFERENCE   7  (bases 1 to 4619)
  AUTHORS   Trajkovic,K., Hsu,C., Chiantia,S., Rajendran,L., Wenzel,D.,
            Wieland,F., Schwille,P., Brugger,B. and Simons,M.
  TITLE     Ceramide triggers budding of exosome vesicles into multivesicular
            endosomes
  JOURNAL   Science 319 (5867), 1244-1247 (2008)
   PUBMED   18309083
REFERENCE   8  (bases 1 to 4619)
  AUTHORS   Krut,O., Wiegmann,K., Kashkar,H., Yazdanpanah,B. and Kronke,M.
  TITLE     Novel tumor necrosis factor-responsive mammalian neutral
            sphingomyelinase-3 is a C-tail-anchored protein
  JOURNAL   J Biol Chem 281 (19), 13784-13793 (2006)
   PUBMED   16517606
REFERENCE   9  (bases 1 to 4619)
  AUTHORS   Okazaki,N., Kikuno,R., Ohara,R., Inamoto,S., Koseki,H., Hiraoka,S.,
            Saga,Y., Nagase,T., Ohara,O. and Koga,H.
  TITLE     Prediction of the coding sequences of mouse homologues of KIAA
            gene: III. the complete nucleotide sequences of 500 mouse
            KIAA-homologous cDNAs identified by screening of terminal sequences
            of cDNA clones randomly sampled from size-fractionated libraries
  JOURNAL   DNA Res 10 (4), 167-180 (2003)
   PUBMED   14621295
REFERENCE   10 (bases 1 to 4619)
  AUTHORS   Stryke,D., Kawamoto,M., Huang,C.C., Johns,S.J., King,L.A.,
            Harper,C.A., Meng,E.C., Lee,R.E., Yee,A., L'Italien,L.,
            Chuang,P.T., Young,S.G., Skarnes,W.C., Babbitt,P.C. and Ferrin,T.E.
  TITLE     BayGenomics: a resource of insertional mutations in mouse embryonic
            stem cells
  JOURNAL   Nucleic Acids Res 31 (1), 278-281 (2003)
   PUBMED   12520002
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            AC115733.14.
            
            On Mar 30, 2022 this sequence version replaced NM_029945.3.
            
            Transcript Variant: This variant (1) encodes the longest isoform
            (1).
            
            Publication Note:  This RefSeq record includes a subset of the
            publications that are available for this gene. Please see the Gene
            record to access additional publications.
            
            ##Evidence-Data-START##
            Transcript exon combination :: AK129354.1, AK019466.2 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMN00849374, SAMN00849375
                                           [ECO:0000348]
            ##Evidence-Data-END##
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-75                AC115733.14        129749-129823
            76-159              AC115733.14        131831-131914
            160-246             AC115733.14        134294-134380
            247-389             AC115733.14        136109-136251
            390-465             AC115733.14        136333-136408
            466-574             AC115733.14        136819-136927
            575-627             AC115733.14        137028-137080
            628-779             AC115733.14        137191-137342
            780-909             AC115733.14        139458-139587
            910-981             AC115733.14        142375-142446
            982-1068            AC115733.14        145871-145957
            1069-1214           AC115733.14        148885-149030
            1215-1305           AC115733.14        149663-149753
            1306-1406           AC115733.14        150134-150234
            1407-1570           AC115733.14        150515-150678
            1571-1767           AC115733.14        151254-151450
            1768-2001           AC115733.14        151751-151984
            2002-2133           AC115733.14        152087-152218
            2134-2262           AC115733.14        152558-152686
            2263-4619           AC115733.14        152863-155219
FEATURES             Location/Qualifiers
     source          1..4619
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="16"
                     /map="16 10.92 cM"
     gene            1..4619
                     /gene="Smpd4"
                     /gene_synonym="4122402O22Rik"
                     /note="sphingomyelin phosphodiesterase 4"
                     /db_xref="GeneID:77626"
                     /db_xref="MGI:MGI:1924876"
     exon            1..75
                     /gene="Smpd4"
                     /gene_synonym="4122402O22Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            76..159
                     /gene="Smpd4"
                     /gene_synonym="4122402O22Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            160..246
                     /gene="Smpd4"
                     /gene_synonym="4122402O22Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            247..389
                     /gene="Smpd4"
                     /gene_synonym="4122402O22Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            390..465
                     /gene="Smpd4"
                     /gene_synonym="4122402O22Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            466..574
                     /gene="Smpd4"
                     /gene_synonym="4122402O22Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            575..627
                     /gene="Smpd4"
                     /gene_synonym="4122402O22Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            628..779
                     /gene="Smpd4"
                     /gene_synonym="4122402O22Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            780..909
                     /gene="Smpd4"
                     /gene_synonym="4122402O22Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            910..981
                     /gene="Smpd4"
                     /gene_synonym="4122402O22Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            982..1068
                     /gene="Smpd4"
                     /gene_synonym="4122402O22Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            1069..1214
                     /gene="Smpd4"
                     /gene_synonym="4122402O22Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            1215..1305
                     /gene="Smpd4"
                     /gene_synonym="4122402O22Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            1306..1406
                     /gene="Smpd4"
                     /gene_synonym="4122402O22Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            1407..1570
                     /gene="Smpd4"
                     /gene_synonym="4122402O22Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            1571..1767
                     /gene="Smpd4"
                     /gene_synonym="4122402O22Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            1768..2001
                     /gene="Smpd4"
                     /gene_synonym="4122402O22Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            2002..2133
                     /gene="Smpd4"
                     /gene_synonym="4122402O22Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            2134..2262
                     /gene="Smpd4"
                     /gene_synonym="4122402O22Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            2263..4619
                     /gene="Smpd4"
                     /gene_synonym="4122402O22Rik"
                     /inference="alignment:Splign:2.1.0"
     regulatory      3267..3272
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Smpd4"
                     /gene_synonym="4122402O22Rik"
                     /note="hexamer: AATAAA"
     polyA_site      3288
                     /gene="Smpd4"
                     /gene_synonym="4122402O22Rik"
                     /note="major polyA site"
     regulatory      4597..4602
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Smpd4"
                     /gene_synonym="4122402O22Rik"
                     /note="hexamer: AATAAA"
     polyA_site      4619
                     /gene="Smpd4"
                     /gene_synonym="4122402O22Rik"
ORIGIN      
        1 gacattaggc gccgagtgtc cgaatggcgg ctcccttctc tgagaagctc gagatttgtg
       61 ctatcagcac ggcagtggtt ccctaaggca gccgtttctt gccggccctg ggagtctgct
      121 atggcgttcc ctcacctaca acagcctagt ttccttctgg ctagcctgaa agctgactct
      181 ataaataagc cctttgcaca acgttgccaa gatttggtga aagtcattga ggattttcca
      241 gccaaggaat tgcatgccgt cttcccatgg ctggtggaaa gcatctttgg cagcctggat
      301 ggtgtccttg ttggttggaa tctccgatgc ctacagggac gtgtgaaccc tgtggagtac
      361 agcacagcga tggaatttct agacccaagt ggtccaatga tgaagttggt ttataaactt
      421 caagctgaag actataactt tgattttcct gtctcctgtc ttcctggccc tgtgaaggca
      481 tccattcaag agaatgtcct ccctgacagt cctctgtacc acaacaaagt ccagtttccc
      541 ccgaccggag gccttggcct gaacctggcc ctcaatccat ttgaatacta tatgttctac
      601 tttgctttga gcctcatctc tcaaaagcca atgtctatga ccctccatgt ccgtacttcg
      661 gactgtgcct atttcaccct ggtggatagg tacctatcat ggttcctacc cactgaaggc
      721 agcgtacctc caccactctg ctccagtcca ggaggctcca gcccctcacc agctcccaga
      781 acaccagcca tgccctttgc ctcctatggc ctccacacta gcctcttgaa gcgacacatc
      841 tctcatcaga catctgtgaa tgcagaccct gcatcccatg agatctggcg gtcagaaact
      901 ctcctccagg tttttgtgga aatgtggctt catcattact ccctggagat gtaccaaaaa
      961 atgcagtccc ctcatgccaa gttggaggtt ctacactacc gactcactgt ctccagcgcc
     1021 ctccacagcc ctgcccaacc cagcctccag gccctccacg cctaccaaga gtccttcacg
     1081 cctactgaag agcacgtgct ggtggtacgc ctgctgctga agcacctgca tgcctttgcc
     1141 aacagcctga agccagatca ggcttcgcca tctgcacact cccatgccac cagtccgctg
     1201 gaggaattca aacgggccgc agtgcctcgc tttgtccagc agaagctgta cgtcttcctg
     1261 cagcactgtt ttggccactg gcctctggat gcaaccttca gagctgtctt ggagatgtgg
     1321 ctgagctacc tgcagccatg gaggtatgcc cctgagaaac aggctcaggg cagcgatccc
     1381 cagccacggt gtgtgtcaga gaagtgggca cccttcatcc aggaaaacct gctgatgtac
     1441 accaagctgt ttgtgagctt tctgaaccgt gccctacgca cagaccttgt cagccccaag
     1501 aatgcactca tggtcttccg agtggctaag gtctttgccc agcccaacct ggctgagatg
     1561 atccagaaag gtgagcagct gttcctggag ccggagctca tcatccccca ccgccaacac
     1621 cggctcttca cagtcaccac cagcttcctg tcaccatggc cccctgttgt gacagatgcc
     1681 tccttcaagg tgaagagcca tgtctatagc ctagagggcc aagactgcaa atatacccca
     1741 atgtttggtc ctgaaatccg aaccctggtc ttgcgccttg ctcagctcat cacacaggcc
     1801 aagcagactg ccaagtccat ctctgatcag tatgtggaaa gcccaactgg ccgctccttc
     1861 ctgtcatggc tgacctttgg cctcacagac acaaatagct gctacccagc caatgacctg
     1921 gatgaaatag gtcaggacag catccgcaag acagacgagt acttagaaaa ggccctggag
     1981 tacctgcgcc agatattccg gctcagcgaa gcccagctgg cccagctcac gcttgccctg
     2041 gggagtgctc gggacgagaa tgggaagcag cagctcccag attgcattgt gggggaagaa
     2101 ggactcatcc ttacaccctt gggccgctac cagatcatta atggtctgcg aaggttcgag
     2161 attgagtacc agggagactt agagctgcag cccatccgga gctacgaaat caccagtctg
     2221 gtccgtgcac tcttccggct gtcctctgcc atcaaccgta gatttgcagg ccagatggca
     2281 gctctgtgct cccggaatga cttccttggc agcttctgtc gctaccacct cactgagcct
     2341 gccttgagca acagacatct gctgagccct gtagggcgga ggcaggtcac caatcctgca
     2401 cggggcccca ggctcagcct ccgtttcctg ggcagttacc ggacactgct cctgctcctg
     2461 atggccttct ttgtggcttc tctgttctgc attgggcccc tgtcctgctc cttgctcctg
     2521 gtcctaggat acgtcctcta tgccatagct atgacactgc tcactgaacg ggggaagctg
     2581 caccagctct gagctgctgg ccatcctctc ctgagcagac tgtggcaggt tgcttagaag
     2641 ccaggaatag aggggcaggt catcttcagt gttcttggga gtagtttccc tgcagtggtg
     2701 gagttattca aaagaacaaa gagttggaag ggagagtgat ccaggcaggc ctgacacaga
     2761 agggtcagtg tcagaaggtt cataagccat tgtgtaagac aatcagtgct ggccatggct
     2821 cctcaccttc agtccaaggg cacacaagca gctcaatatc cactccaggg gagaagcagg
     2881 gttctaagag acagagcttg gggttggagc ttggtctggc cagcctctgt ggacacaaag
     2941 caaaaaagca ttggttttgc ctgtaaaact aaggaattta agggagcgtc acatttgtaa
     3001 caacacctgt atgaaaaaaa caccttcaca tcaaagctaa gacaccaaag ggctcaagtt
     3061 caccctgcag gtgaacacca ccatctccaa ggtgttctta aaccagccct tttgttgtgg
     3121 gtgtgtagct gtttttaaag aaaaaaaaat accaacctgt tttttttcaa agttatcact
     3181 gggctttgta tttcgatgta acttcagaat acatcatggg acccatgacc aaaagtcagc
     3241 tcaaaacata actgaacaag gatccgaata aaccattctt gcttcggaga ttgtctgggc
     3301 tgaatcttta gcctgtttac ctgccaaggg tccctgggca tttgggaact gtggagcaag
     3361 ctcctggaca cggtacctcc ttacctcgtg atggagttct ttctgactga aagtcccctt
     3421 tcatgcctag ggcatgttgg attcaacttc tgcagaaaca agacaaggca gactaaccct
     3481 gaggtggggg caggccctgt ggtgccctga gaactgattt ccctgcttaa cacctcagaa
     3541 ctggctgtca tccagaacaa ataccacatt ggcttccaga aacttccttt ttgttaaaca
     3601 gtgtcatttt tattttatgt gagtgaatgt tgcttgtgtc tgttcatcat atgtatgcat
     3661 ttaaggaggc caagaagagg gagtgggtgg gtgctggaga ccaaactcca ggcttctgta
     3721 gtgctcttaa tcaactactg agccatctct tcagcctcca gaatcttaga gtcatgggca
     3781 gatggggctg acctatacta gccagctcca ggccagcatc ttcccaggag tacaacctcc
     3841 ttgtggtggg aagggaagtt gccttttgag tgtcccactg tttccaattc ccctggtcag
     3901 agctgaatga ctagccctta ccaacaaccc tatcaatatt tatcttttgt gtgggggata
     3961 gagatagtta ctcttgtgta gcccaggctg gccttgaact cagagataca cgtacactta
     4021 ccaagtgttg gaatcaaagg cttgtgccaa ctctttacct agcctgtatt tatttatgag
     4081 atgaatattt ttttaaattt tttttctctt gacagttaca cacacacaca cacacaggtc
     4141 atgtcttact ccttcaagtg cccccagagt ttaatgtttt agactgactt attggagtgt
     4201 gggggatgca gtgcatgcat gcgtgccatg tatggacata ggtcagaggt ttgaggaatg
     4261 gaactaggtt aggcctcaaa gcaggtgtca ccagttgtca gcgttcagtt gtcaacttga
     4321 ttcacctggg aaagggacct tttcttgatt gatgtagcta tcttcgggtg gtaccatccc
     4381 taggcaggta ggtctgggct gtataagaaa ggtagctgaa agtaagctgg ggagaaagcc
     4441 ccaagcagtc tcttggtttc tgcttcaggc ttctgccttg ccttgagttc cttcatggca
     4501 tctgtccatg atagactcta acctataagc taaaataaac cctctgatgc ccactttgct
     4561 tttcttttga tcacggtgtt tatcgcagca acaaaaaata aaataggatg ctcaactaa
//
