LOCUS       NM_001167806            3450 bp    mRNA    linear   ROD 03-APR-2024
DEFINITION  Rattus norvegicus sphingomyelin phosphodiesterase 4 (Smpd4), mRNA.
ACCESSION   NM_001167806 XM_001058775 XM_001063553
VERSION     NM_001167806.2
KEYWORDS    RefSeq; RefSeq Select.
SOURCE      Rattus norvegicus (Norway rat)
  ORGANISM  Rattus norvegicus
            Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
            Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha;
            Muroidea; Muridae; Murinae; Rattus.
REFERENCE   1  (bases 1 to 3450)
  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   2  (bases 1 to 3450)
  AUTHORS   Magini,P., Smits,D.J., Vandervore,L., Schot,R., Columbaro,M.,
            Kasteleijn,E., van der Ent,M., Palombo,F., Lequin,M.H., Dremmen,M.,
            de Wit,M.C.Y., Severino,M., Divizia,M.T., Striano,P.,
            Ordonez-Herrera,N., Alhashem,A., Al Fares,A., Al Ghamdi,M.,
            Rolfs,A., Bauer,P., Demmers,J., Verheijen,F.W., Wilke,M., van
            Slegtenhorst,M., van der Spek,P.J., Seri,M., Jansen,A.C.,
            Stottmann,R.W., Hufnagel,R.B., Hopkin,R.J., Aljeaid,D.,
            Wiszniewski,W., Gawlinski,P., Laure-Kamionowska,M., Alkuraya,F.S.,
            Akleh,H., Stanley,V., Musaev,D., Gleeson,J.G., Zaki,M.S.,
            Brunetti-Pierri,N., Cappuccio,G., Davidov,B., Basel-Salmon,L.,
            Bazak,L., Shahar,N.R., Bertoli-Avella,A., Mirzaa,G.M., Dobyns,W.B.,
            Pippucci,T., Fornerod,M. and Mancini,G.M.S.
  TITLE     Loss of SMPD4 Causes a Developmental Disorder Characterized by
            Microcephaly and Congenital Arthrogryposis
  JOURNAL   Am J Hum Genet 105 (4), 689-705 (2019)
   PUBMED   31495489
REFERENCE   3  (bases 1 to 3450)
  AUTHORS   Wilson,R., Geyer,S.H., Reissig,L., Rose,J., Szumska,D., Hardman,E.,
            Prin,F., McGuire,C., Ramirez-Solis,R., White,J., Galli,A.,
            Tudor,C., Tuck,E., Mazzeo,C.I., Smith,J.C., Robertson,E.,
            Adams,D.J., Mohun,T. and Weninger,W.J.
  TITLE     Highly variable penetrance of abnormal phenotypes in embryonic
            lethal knockout mice
  JOURNAL   Wellcome Open Res 1, 1 (2017)
   PUBMED   27996060
  REMARK    Publication Status: Online-Only
REFERENCE   4  (bases 1 to 3450)
  AUTHORS   Corcoran,C.A., He,Q., Ponnusamy,S., Ogretmen,B., Huang,Y. and
            Sheikh,M.S.
  TITLE     Neutral sphingomyelinase-3 is a DNA damage and nongenotoxic
            stress-regulated gene that is deregulated in human malignancies
  JOURNAL   Mol Cancer Res 6 (5), 795-807 (2008)
   PUBMED   18505924
REFERENCE   5  (bases 1 to 3450)
  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
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            JAXUCZ010000011.1.
            
            On Sep 23, 2014 this sequence version replaced NM_001167806.1.
            
            Sequence Note: The RefSeq transcript and protein were derived from
            genomic sequence to make the sequence consistent with the reference
            genome assembly. The genomic coordinates used for the transcript
            record were based on alignments.
            
            ##Evidence-Data-START##
            Transcript exon combination :: SRR26643298.67747.1,
                                           SRR26643295.44104.1 [ECO:0000332]
            RNAseq introns              :: mixed sample support SAMEA5760383,
                                           SAMEA5760386 [ECO:0006172]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            RefSeq Select criteria :: based on single protein-coding transcript
            ##RefSeq-Attributes-END##
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-72                JAXUCZ010000011.1  96890449-96890520   c
            73-156              JAXUCZ010000011.1  96888413-96888496   c
            157-243             JAXUCZ010000011.1  96886187-96886273   c
            244-386             JAXUCZ010000011.1  96884356-96884498   c
            387-462             JAXUCZ010000011.1  96884199-96884274   c
            463-571             JAXUCZ010000011.1  96883665-96883773   c
            572-624             JAXUCZ010000011.1  96883508-96883560   c
            625-776             JAXUCZ010000011.1  96883245-96883396   c
            777-906             JAXUCZ010000011.1  96881050-96881179   c
            907-978             JAXUCZ010000011.1  96878098-96878169   c
            979-1065            JAXUCZ010000011.1  96874734-96874820   c
            1066-1211           JAXUCZ010000011.1  96871824-96871969   c
            1212-1302           JAXUCZ010000011.1  96871270-96871360   c
            1303-1403           JAXUCZ010000011.1  96870785-96870885   c
            1404-1567           JAXUCZ010000011.1  96870105-96870268   c
            1568-1764           JAXUCZ010000011.1  96869168-96869364   c
            1765-1998           JAXUCZ010000011.1  96868668-96868901   c
            1999-2130           JAXUCZ010000011.1  96868437-96868568   c
            2131-2259           JAXUCZ010000011.1  96868195-96868323   c
            2260-3450           JAXUCZ010000011.1  96866805-96867995   c
FEATURES             Location/Qualifiers
     source          1..3450
                     /organism="Rattus norvegicus"
                     /mol_type="mRNA"
                     /strain="BN"
                     /db_xref="taxon:10116"
                     /chromosome="11"
                     /map="11q23"
     gene            1..3450
                     /gene="Smpd4"
                     /gene_synonym="RGD1310674"
                     /note="sphingomyelin phosphodiesterase 4"
                     /db_xref="GeneID:303790"
                     /db_xref="RGD:1310674"
     exon            1..72
                     /gene="Smpd4"
                     /gene_synonym="RGD1310674"
                     /inference="alignment:Splign:2.1.0"
     exon            73..156
                     /gene="Smpd4"
                     /gene_synonym="RGD1310674"
                     /inference="alignment:Splign:2.1.0"
     CDS             118..2589
                     /gene="Smpd4"
                     /gene_synonym="RGD1310674"
                     /EC_number="3.1.4.12"
                     /note="sphingomyelin phosphodiesterase 4, neutral
                     membrane"
                     /codon_start=1
                     /product="sphingomyelin phosphodiesterase 4"
                     /protein_id="NP_001161278.2"
                     /db_xref="GeneID:303790"
                     /db_xref="RGD:1310674"
                     /translation="MAFPHLQQPSFLLASLKADSINKPFAQRCQDLVKVIEDFPAKEL
                     HAIFPWLVESIFGSLDGVLVGWNLRCLQGRVNPVEYSIAMEFLDPSGPMMKLVYKLQA
                     EDYNFDFPVSCLPGPVKASIQENVLPDSPLYHNKVQFPPTGGLGLNLALNPFEYYMFY
                     FALSLISQKPMPMSFHVRTSDCAYFILVDRYLSWFLPTEGSVPPPLCSSPGGSSPSPA
                     PRTPAMPFASYGLHTSLLKRHISHQTSVNADPASHEIWRSETLLQVFVEMWLHHYSLE
                     MYQKMQSPHAKLEVLHYRLNVSSALHSPAQPSLQALHAYQESFMPTEEHVLVVRLLLK
                     HLHAFANSLKPDQASPSAHSHATSPLEEFKRAAVPRFVQQKLYVFLQHCFGHWPLDAS
                     FRAVLEMWLSYLQPWRYAPEKQAQGSDSQPRCVSERWAPFIQENLLMYTKLFVSFLNR
                     ALRTDLVSPKNALMVFRVAKVFAQPNLTEMIQKGEQLFLEPELIIPHRQHRLFTATSS
                     FLSPWPPVVTDASFKVKSHVYSLEGQDCKYTPMFGPEVRTLVLRLAQLITQAKQTAKS
                     ISDQCVESPTGRSFLSWLGFGSTDTNSWYPANDPDEMGQDSIRKTDEYLEKALEYLRQ
                     IFRLSEAQLAQLTLALGNARDENGKQQLPDCIVGEEGLILTPLGRYQIINGLRRFEIE
                     YQGDLELQPIRSYEITSLVRALFRLSSAINRRCAGQMAALCSRNDFLGSFCRYHLTEP
                     ALSNRHLLSPVGRRQVTTPARGPRLSLRFLGSYRTLLLLLMAFFVASLFCIGPLPCSL
                     LLVLGYILYAIAMTLLTERGKLHQL"
     exon            157..243
                     /gene="Smpd4"
                     /gene_synonym="RGD1310674"
                     /inference="alignment:Splign:2.1.0"
     exon            244..386
                     /gene="Smpd4"
                     /gene_synonym="RGD1310674"
                     /inference="alignment:Splign:2.1.0"
     exon            387..462
                     /gene="Smpd4"
                     /gene_synonym="RGD1310674"
                     /inference="alignment:Splign:2.1.0"
     exon            463..571
                     /gene="Smpd4"
                     /gene_synonym="RGD1310674"
                     /inference="alignment:Splign:2.1.0"
     exon            572..624
                     /gene="Smpd4"
                     /gene_synonym="RGD1310674"
                     /inference="alignment:Splign:2.1.0"
     exon            625..776
                     /gene="Smpd4"
                     /gene_synonym="RGD1310674"
                     /inference="alignment:Splign:2.1.0"
     exon            777..906
                     /gene="Smpd4"
                     /gene_synonym="RGD1310674"
                     /inference="alignment:Splign:2.1.0"
     exon            907..978
                     /gene="Smpd4"
                     /gene_synonym="RGD1310674"
                     /inference="alignment:Splign:2.1.0"
     exon            979..1065
                     /gene="Smpd4"
                     /gene_synonym="RGD1310674"
                     /inference="alignment:Splign:2.1.0"
     exon            1066..1211
                     /gene="Smpd4"
                     /gene_synonym="RGD1310674"
                     /inference="alignment:Splign:2.1.0"
     exon            1212..1302
                     /gene="Smpd4"
                     /gene_synonym="RGD1310674"
                     /inference="alignment:Splign:2.1.0"
     exon            1303..1403
                     /gene="Smpd4"
                     /gene_synonym="RGD1310674"
                     /inference="alignment:Splign:2.1.0"
     exon            1404..1567
                     /gene="Smpd4"
                     /gene_synonym="RGD1310674"
                     /inference="alignment:Splign:2.1.0"
     exon            1568..1764
                     /gene="Smpd4"
                     /gene_synonym="RGD1310674"
                     /inference="alignment:Splign:2.1.0"
     exon            1765..1998
                     /gene="Smpd4"
                     /gene_synonym="RGD1310674"
                     /inference="alignment:Splign:2.1.0"
     exon            1999..2130
                     /gene="Smpd4"
                     /gene_synonym="RGD1310674"
                     /inference="alignment:Splign:2.1.0"
     exon            2131..2259
                     /gene="Smpd4"
                     /gene_synonym="RGD1310674"
                     /inference="alignment:Splign:2.1.0"
     exon            2260..3450
                     /gene="Smpd4"
                     /gene_synonym="RGD1310674"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      
        1 attaggcgcc aagtagccga atggcagctc ccgtttctga gaagctcgag atttctgcta
       61 tcagcaaagc agtggttccc taaggcagcc atttcttgct tgccctggga ggctgctatg
      121 gcgttccctc acctacaaca gcctagtttc cttctggcta gcctgaaagc tgactctata
      181 aataagccct ttgcgcagcg ttgccaagat ttggtgaaag tcattgagga ttttccagcc
      241 aaggaattgc atgccatctt cccatggctg gtggagagca tctttggcag cctggatggt
      301 gtccttgttg gctggaatct ccgatgccta cagggacgtg tgaaccctgt ggagtatagc
      361 atagcaatgg aatttctaga cccaagtggc ccaatgatga agttggtgta taagcttcaa
      421 gctgaagact ataactttga cttccctgtc tcctgtcttc ctggccctgt gaaggcatcc
      481 attcaagaga atgtcctccc tgacagtcct ctgtaccaca ataaggtcca gtttcccccg
      541 actggaggcc tgggcctgaa tctggccctc aatccattcg aatactatat gttctacttt
      601 gctttgagcc tcatctctca aaagccaatg cctatgtctt tccatgtccg tacttcggac
      661 tgcgcctatt tcatcctggt ggacaggtac ctgtcgtggt tcctacccac tgaaggcagc
      721 gtgcctccac cactctgctc cagtcccggg ggctccagcc cctcaccagc tcccaggaca
      781 ccagccatgc cctttgcctc ctatggcctc cacactagcc tcttgaagcg gcacatctct
      841 catcagacat ctgtgaatgc agaccctgca tcccatgaga tctggcggtc agaaactcta
      901 ctccaggttt ttgtggaaat gtggcttcat cattactccc tggagatgta ccaaaaaatg
      961 cagtcccctc atgccaagtt ggaggttcta cactaccgac tcaatgtgtc cagcgccctc
     1021 cacagccctg cccaacccag cctccaggcc ctccacgcct atcaagagtc cttcatgcct
     1081 actgaagagc atgtgctggt cgtgcgcctg ctgctgaagc acctgcatgc ctttgccaac
     1141 agcctgaagc cagatcaggc ttcaccatca gcacactccc atgccaccag tcccctggag
     1201 gaattcaaac gagctgcagt acctcggttt gtccagcaga agctctatgt cttcctgcag
     1261 cattgttttg gccactggcc tctggatgca tccttcagag ccgtcttgga gatgtggctg
     1321 agctacctgc agccatggcg gtatgcccct gagaaacagg ctcagggcag tgattcccag
     1381 ccacggtgtg tgtcggagag gtgggcaccc ttcatccagg aaaatctgct aatgtacacc
     1441 aagctgtttg tgagcttcct gaaccgtgcc ctacgcacag acctcgtcag ccccaagaat
     1501 gcactcatgg tcttccgagt ggctaaggtc tttgcccagc ccaacctgac tgagatgatc
     1561 cagaaaggtg agcagctgtt cctggagcca gagctcatca ttccccaccg ccaacatcgg
     1621 ctcttcacag ccaccagcag cttcctgtca ccatggcccc ctgttgtgac agatgcctcg
     1681 ttcaaggtga agagccatgt ctacagcctg gagggccaag actgcaaata taccccaatg
     1741 tttggtcctg aagtccgaac cctggtcttg cgccttgctc agctcatcac acaggccaag
     1801 cagactgcca agtccatctc tgatcagtgt gtggagagcc caactggccg ctccttcctg
     1861 tcatggctgg gttttggctc cacagacaca aatagctggt acccagccaa tgacccggat
     1921 gaaatgggtc aggacagcat ccgcaagaca gacgagtacc tagagaaggc cctggagtac
     1981 ctgcgccaga tattccggct cagcgaagcc cagctggccc agctcacact cgccctgggg
     2041 aatgctcggg acgagaatgg gaagcagcag ctcccagact gtattgtggg ggaagaagga
     2101 ctcattctca cacccttggg ccgataccag atcatcaatg gtctgcgaag gttcgagatt
     2161 gagtaccagg gggacttaga gctgcagccc atccggagct atgaaatcac tagtctggtc
     2221 cgtgcactct tccggctgtc ttctgccatc aaccgcagat gtgcaggaca gatggcagct
     2281 ctgtgctccc ggaatgactt ccttggcagc ttctgtcgct accacctcac tgagcctgcc
     2341 ttgagcaaca gacacctgct gagccctgtg gggcggaggc aggtcaccac ccctgcacgg
     2401 ggccccagac tcagcctccg tttcctgggc agttaccgga cactgctcct gctcctgatg
     2461 gccttctttg tggcttctct gttctgcatc gggcccctgc cctgctcctt gctcctggtc
     2521 ctagggtata tcctctacgc catagctatg acactgctca ctgagcgggg gaagctgcac
     2581 cagctctgag ctgctggcca ttctctcctg agtagattgt ggcaggcttc ttagaagcca
     2641 ggaagagagg gataggtcat cttcagagtc tttgggagta gtttccctgc agtggtggag
     2701 ttattcaaaa gaatgtagag ttggaaggga gagtgatcca ggcaggcctg atacggaggg
     2761 aagtgtcagc aggttcatga gctgttctgt aagacaatca gtgctcgcca tgggtcctca
     2821 ccctcagtcc aagggcccac aagcatctga gctagaattc aagggctttg tgaccatttc
     2881 acgattctgc cgtacagagt tcaggagcta gtgtacccac agcaggctct agttctaggc
     2941 tctgggagct gctcctgtgt gggtctctct gaggtgggca ggatgggttg tgatattttt
     3001 tctactgggc atgcaatacc agggcagcag ctcagtatct actccagagg agaagcaaag
     3061 ttcttaagag actgagcttg ggggtggagc tgggtcctgc cagcctctgt ggacacaact
     3121 cagcagcatt tggttctgcc tgtaaaacca aggaatttaa gagaacatca agtttgtaac
     3181 aacactacga aaaaaaccac cttcacatca aagctaagac accaaaggcc tggaattcat
     3241 cctgcaggtg gcgctgcagc gccatcacca tgctgctcgt aacccgccct ttgttttggg
     3301 ttttttacag aaaaaaaaaa aaaacctttt tttcttcaag cttatcactg ggctttgtat
     3361 tttgatgtaa cttcatcatg ggacccataa ccaaaagtca gccctgaaca cagctgacca
     3421 agtccaaata aaccattctt gcttcagaga
//
