LOCUS       NM_025408               3923 bp    mRNA    linear   ROD 09-FEB-2025
DEFINITION  Mus musculus alkaline ceramidase 3 (Acer3), transcript variant 1,
            mRNA.
ACCESSION   NM_025408
VERSION     NM_025408.3
KEYWORDS    RefSeq; RefSeq Select.
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 3923)
  AUTHORS   Li,F., Xu,R., Lin,C.L., Low,B.E., Cai,L., Li,S., Ji,P., Huang,L.,
            Wiles,M.V., Hannun,Y.A., Obeid,L.M., Chen,Y. and Mao,C.
  TITLE     Maternal and fetal alkaline ceramidase 2 is required for placental
            vascular integrity in mice
  JOURNAL   FASEB J 34 (11), 15252-15268 (2020)
   PUBMED   32959379
REFERENCE   2  (bases 1 to 3923)
  AUTHORS   Wang,K., Li,C., Lin,X., Sun,H., Xu,R., Li,Q., Wei,Y., Li,Y.,
            Qian,J., Liu,C., Zhang,Q., Yu,S., Cui,Z., Huang,X., Zhu,B., Zhou,J.
            and Mao,C.
  TITLE     Targeting alkaline ceramidase 3 alleviates the severity of
            nonalcoholic steatohepatitis by reducing oxidative stress
  JOURNAL   Cell Death Dis 11 (1), 28 (2020)
   PUBMED   31949129
  REMARK    GeneRIF: Targeting alkaline ceramidase 3 alleviates the severity of
            nonalcoholic steatohepatitis by reducing oxidative stress.
            Erratum:[Cell Death Dis. 2020 Mar 17;11(3):191. doi:
            10.1038/s41419-020-2396-1.. PMID: 32184395]
            Publication Status: Online-Only
REFERENCE   3  (bases 1 to 3923)
  AUTHORS   Li,F., Xu,R., Low,B.E., Lin,C.L., Garcia-Barros,M., Schrandt,J.,
            Mileva,I., Snider,A., Luo,C.K., Jiang,X.C., Li,M.S., Hannun,Y.A.,
            Obeid,L.M., Wiles,M.V. and Mao,C.
  TITLE     Alkaline ceramidase 2 is essential for the homeostasis of plasma
            sphingoid bases and their phosphates
  JOURNAL   FASEB J 32 (6), 3058-3069 (2018)
   PUBMED   29401619
REFERENCE   4  (bases 1 to 3923)
  AUTHORS   Wang,K., Xu,R., Snider,A.J., Schrandt,J., Li,Y., Bialkowska,A.B.,
            Li,M., Zhou,J., Hannun,Y.A., Obeid,L.M., Yang,V.W. and Mao,C.
  TITLE     Alkaline ceramidase 3 deficiency aggravates colitis and
            colitis-associated tumorigenesis in mice by hyperactivating the
            innate immune system
  JOURNAL   Cell Death Dis 7 (3), e2124 (2016)
   PUBMED   26938296
  REMARK    GeneRIF: Alkaline ceramidase 3 expression has an important role in
            the innate immune response by regulating the expression of
            pro-inflammatory cytokines in cells of the innate immune system
            through C18:1-ceramide.
            Publication Status: Online-Only
REFERENCE   5  (bases 1 to 3923)
  AUTHORS   Wang,K., Xu,R., Schrandt,J., Shah,P., Gong,Y.Z., Preston,C.,
            Wang,L., Yi,J.K., Lin,C.L., Sun,W., Spyropoulos,D.D., Rhee,S.,
            Li,M., Zhou,J., Ge,S., Zhang,G., Snider,A.J., Hannun,Y.A.,
            Obeid,L.M. and Mao,C.
  TITLE     Alkaline Ceramidase 3 Deficiency Results in Purkinje Cell
            Degeneration and Cerebellar Ataxia Due to Dyshomeostasis of
            Sphingolipids in the Brain
  JOURNAL   PLoS Genet 11 (10), e1005591 (2015)
   PUBMED   26474409
  REMARK    GeneRIF: Acer3 plays critically protective roles in controlling the
            homeostasis of various sphingolipids, including ceramides,
            sphingosine, S1P, and certain complex sphingolipids in the brain
            and protects Purkinje cells from premature degeneration.
            Erratum:[PLoS Genet. 2018 Jan 23;14(1):e1007190. doi:
            10.1371/journal.pgen.1007190.. PMID: 29360825]
            Publication Status: Online-Only
REFERENCE   6  (bases 1 to 3923)
  AUTHORS   Wang,Z., Kirkwood,J.S., Taylor,A.W., Stevens,J.F., Leid,M.,
            Ganguli-Indra,G. and Indra,A.K.
  TITLE     Transcription factor Ctip2 controls epidermal lipid metabolism and
            regulates expression of genes involved in sphingolipid biosynthesis
            during skin development
  JOURNAL   J Invest Dermatol 133 (3), 668-676 (2013)
   PUBMED   23096701
REFERENCE   7  (bases 1 to 3923)
  AUTHORS   Boon,A.C., deBeauchamp,J., Hollmann,A., Luke,J., Kotb,M., Rowe,S.,
            Finkelstein,D., Neale,G., Lu,L., Williams,R.W. and Webby,R.J.
  TITLE     Host genetic variation affects resistance to infection with a
            highly pathogenic H5N1 influenza A virus in mice
  JOURNAL   J Virol 83 (20), 10417-10426 (2009)
   PUBMED   19706712
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            AC111084.12 and AC119880.11.
            
            On Feb 8, 2018 this sequence version replaced NM_025408.2.
            
            Transcript Variant: This variant (1) encodes the longest isoform
            (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 :: AK162403.1, AK080977.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMN01164142, SAMN01164143
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            RefSeq Select criteria :: based on conservation, expression,
                                      longest protein
            ##RefSeq-Attributes-END##
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-195               AC111084.12        74313-74507         c
            196-306             AC119880.11        17454-17564
            307-359             AC119880.11        22062-22114
            360-412             AC119880.11        24244-24296
            413-494             AC119880.11        25924-26005
            495-530             AC119880.11        31776-31811
            531-589             AC119880.11        39694-39752
            590-691             AC119880.11        57201-57302
            692-796             AC119880.11        59685-59789
            797-842             AC119880.11        65600-65645
            843-3923            AC119880.11        66811-69891
FEATURES             Location/Qualifiers
     source          1..3923
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="7"
                     /map="7 53.65 cM"
     gene            1..3923
                     /gene="Acer3"
                     /gene_synonym="1110057L18Rik; 5430429L08Rik; aPHC; Phca"
                     /note="alkaline ceramidase 3"
                     /db_xref="GeneID:66190"
                     /db_xref="MGI:MGI:1913440"
     exon            1..195
                     /gene="Acer3"
                     /gene_synonym="1110057L18Rik; 5430429L08Rik; aPHC; Phca"
                     /inference="alignment:Splign:2.1.0"
     CDS             93..896
                     /gene="Acer3"
                     /gene_synonym="1110057L18Rik; 5430429L08Rik; aPHC; Phca"
                     /EC_number="3.5.1.23"
                     /note="isoform 1 is encoded by transcript variant 1;
                     phytoceramidase, alkaline; alkCDase 3; alkaline CDase 3;
                     alkaline phytoceramidase"
                     /codon_start=1
                     /product="alkaline ceramidase 3 isoform 1"
                     /protein_id="NP_079684.2"
                     /db_xref="CCDS:CCDS21468.1"
                     /db_xref="GeneID:66190"
                     /db_xref="MGI:MGI:1913440"
                     /translation="MAPAVDRKGYWGPTTSTLDWCEENYVVTLFVAEFWNTVSNLIMI
                     IPPIFGAIQGIRDRLEKRYIAAYLALTVVGMGSWCFHMTLKYEMQLLDELPMIYSCCI
                     FVYCMFECFKTKSSINYHLLFTLFLYSLTVTTIYLKVKEPIFHQVMYGMLVFTLVLRS
                     IYIVTWVYPWLRGLGYTSLTVFLLGFLLWNIDNIFCDSLRNFRKRVPPVLGVTTQFHA
                     WWHILTGLGSYLHILFSLYTRTLYLRYRPKVKFLFGIWPAVMFEPQRKH"
     exon            196..306
                     /gene="Acer3"
                     /gene_synonym="1110057L18Rik; 5430429L08Rik; aPHC; Phca"
                     /inference="alignment:Splign:2.1.0"
     exon            307..359
                     /gene="Acer3"
                     /gene_synonym="1110057L18Rik; 5430429L08Rik; aPHC; Phca"
                     /inference="alignment:Splign:2.1.0"
     exon            360..412
                     /gene="Acer3"
                     /gene_synonym="1110057L18Rik; 5430429L08Rik; aPHC; Phca"
                     /inference="alignment:Splign:2.1.0"
     exon            413..494
                     /gene="Acer3"
                     /gene_synonym="1110057L18Rik; 5430429L08Rik; aPHC; Phca"
                     /inference="alignment:Splign:2.1.0"
     exon            495..530
                     /gene="Acer3"
                     /gene_synonym="1110057L18Rik; 5430429L08Rik; aPHC; Phca"
                     /inference="alignment:Splign:2.1.0"
     exon            531..589
                     /gene="Acer3"
                     /gene_synonym="1110057L18Rik; 5430429L08Rik; aPHC; Phca"
                     /inference="alignment:Splign:2.1.0"
     exon            590..691
                     /gene="Acer3"
                     /gene_synonym="1110057L18Rik; 5430429L08Rik; aPHC; Phca"
                     /inference="alignment:Splign:2.1.0"
     exon            692..796
                     /gene="Acer3"
                     /gene_synonym="1110057L18Rik; 5430429L08Rik; aPHC; Phca"
                     /inference="alignment:Splign:2.1.0"
     exon            797..842
                     /gene="Acer3"
                     /gene_synonym="1110057L18Rik; 5430429L08Rik; aPHC; Phca"
                     /inference="alignment:Splign:2.1.0"
     exon            843..3923
                     /gene="Acer3"
                     /gene_synonym="1110057L18Rik; 5430429L08Rik; aPHC; Phca"
                     /inference="alignment:Splign:2.1.0"
     regulatory      1270..1275
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Acer3"
                     /gene_synonym="1110057L18Rik; 5430429L08Rik; aPHC; Phca"
                     /note="hexamer: ATTAAA"
     regulatory      1281..1286
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Acer3"
                     /gene_synonym="1110057L18Rik; 5430429L08Rik; aPHC; Phca"
                     /note="hexamer: AACAAA"
     polyA_site      1290
                     /gene="Acer3"
                     /gene_synonym="1110057L18Rik; 5430429L08Rik; aPHC; Phca"
                     /note="major polyA site"
     polyA_site      1306
                     /gene="Acer3"
                     /gene_synonym="1110057L18Rik; 5430429L08Rik; aPHC; Phca"
ORIGIN      
        1 gccctttggg taagggagga ggaagccgga gagcgcgctt tgcctgagcc ggcccgagag
       61 cggctgagca gggtgtgtgg ggcgtcagcg cgatggctcc ggctgtggac cgcaaaggct
      121 attggggccc cacgacctcc acattggact ggtgtgagga gaactatgtg gtgaccttgt
      181 tcgtcgctga gttctggaat acagtgagta acctgattat gatcatacct ccaatttttg
      241 gtgcaattca aggcattaga gacagactgg agaagcggta cattgctgct tacttagcac
      301 tcacagtggt aggaatggga tcctggtgtt tccacatgac tctgaaatat gaaatgcagc
      361 tgttggatga gctccccatg atttacagct gctgcatatt tgtatactgc atgtttgagt
      421 gtttcaagac aaagagctca ataaactacc atcttctttt taccctattt ctatacagtt
      481 taacagtaac tacgatttac ctaaaagtca aagaacctat attccatcag gtcatgtatg
      541 gaatgttggt ctttacatta gtacttcgtt ctatttatat tgttacatgg gtttatccat
      601 ggcttagagg actaggttat acatccttaa ctgtcttttt attggggttt ttattgtgga
      661 atatagataa catcttttgt gattcactga ggaactttcg aaagagagtg ccccccgtcc
      721 taggtgttac aacacagttt catgcatggt ggcatattct aactggcctg ggttcttatc
      781 ttcacatcct tttcagttta tatacaagaa cactttacct gaggtacagg ccaaaagtga
      841 agtttctctt tggaatctgg ccagcagtca tgtttgaacc tcagaggaag cactgatgaa
      901 ttattctacc aagaaaataa aaaacaccta ctgtatgtag ttctgccaag atggtcaaga
      961 accccccaaa gacttgtaca tttgaagaca ccatgcccat cacaagagat gaatgactca
     1021 gcctgaatga cccagccata gagaatgggc aattggcctg ttgggtattt agctcctggc
     1081 tttatctcgt ttgccctgga cctaagatgc ttagagaaaa acagaaagtg tatatttata
     1141 ttctagaatg gtggagaatt tgggcttttc ttaacaggtt aacagtttgt gctggtcatt
     1201 catggaaaat taatattttt ttcttttttt acaagagttg catgttaatt gtatctttat
     1261 taatttttaa ttaaatattg aacaaagtca ttaagtactg gcaaaatacc atatccagat
     1321 ggttgactgt gagccagcac ttagccgtgt catctttgat ttacattctt atattaattt
     1381 cacagatggc tttccagtaa taaaaaagaa aaggtgtggg attctaggca gctccttgct
     1441 atctgccttg gtgctagctg gagtcttaga agtaaactct gacctgccag tgagtgggct
     1501 ctgttctcat cacattcaag attttgtctt ggactctgtg gcccacagcc aatcaaaggg
     1561 gtgggccatc caacacccct tcagaagctt ttccagaaca cccgtggaat gtagtcctct
     1621 caccagttag aggctgttgt tttgctttct ttgatcttca aattattatt actattgtgt
     1681 ctagcaaatt taactggtaa tctgtaagac aacacagttt aattgacttt atcagggaaa
     1741 gttgtcagtt ttttaatttt tccattatgc agtatgcata gtgaagcaaa tagttctaat
     1801 tcggatttga atgtatacga aattgaatta ataatcacaa acagtaaatg aaagatcata
     1861 tgttatatct aagctatggc cccaaaagaa aagtggggtt tttttcccca tgtgaaattg
     1921 gtttttaaaa aattctcata ttttcaatat tcattaacaa gctttagcct ggcagggtga
     1981 tgcatgtctt taatcacagc acttgaaagg cagagatagg cagatctctg tgattttaag
     2041 gccagcctgg cctatatagt tccaggatag tcaggaatac atagtgaaac tctgtctcaa
     2101 aaaagaaaaa cagtgttggt tcattagtta gccttggaat atttataaaa ccaaaaatat
     2161 ttccttcacc ctctggcttt agttttttaa tgccaagtgc cagtttcctt cctttacatc
     2221 tcaggtggcc attagacaaa cacacctttt ataaaagcaa gacatgccaa aacataagaa
     2281 gaccttagtt gtactttgat cataggcata gatcagagtc tagaacacat ttactgaatt
     2341 ttccagtttc ttgtgttctg gaacaagaac tggaccagag acacatgaat ggtgatggaa
     2401 gtagagacct tctgttagga agaaagaaaa atattcccca aaatgagagt atgtctaagg
     2461 actaagaaag gtctaaggct gaaaagcctt ggaccagaag agtctctgct ctttatagga
     2521 tctttgcata gcctccatct tttctggcaa ttaggaaggt agggtttttt gtttgtttgt
     2581 ttgtttgttt gtttgtttgt ttgtttgttt tttaaagcat gctgttttgt tatgcataaa
     2641 tctgttggaa aggtttccag tcttcctttg ggattggctt ttgtttgttt gcactaggat
     2701 ttcctattct cctacctcac tttaccccat cctaagagct gtagttccaa aaatctttgt
     2761 gaggagctaa aggatgacta tctattttgt ataattccca tgttaatgag ggatggagtc
     2821 tttgccaaag agagtctttt cctattttat ctactggttg gagaggaggc tgtagagttt
     2881 ttgttttagg agttgccttg aatccttgta tcataatgat aaattgtaca tgatttttta
     2941 aaaaaatgta agaatttggg ctggaggagt ggtttagcat ttaagagcac taattgctct
     3001 tacagaagcc ttgagtctga ttctcagcac ccacattgta gctcacaacc atccataact
     3061 atagtttcta aggttctaac aacttcttat aacatctgct ggcaccagac atgcacattg
     3121 tacacataca tatataagaa aaatatccat atacctaaaa taaataattt ttaaaaatgt
     3181 caatgtaaaa ataatatgat tatgtcagcc attagctcca gaaaggacca gaatcaggaa
     3241 aagcatagct atgcttatgt aaattattct ggatatggtc ctttaggttg ttaaaacaac
     3301 aacaaccaaa acaaaatcca caaacaaata aactgatagt tatgcattaa agttgtgtca
     3361 aaatatggaa agaacaattt gtaggaaaaa aaattcagta gtggactaga ttaaagagaa
     3421 ggaagtatgg gattgtaacc attgagtacc aacagtgcca aaagagaaca tgaaaagcat
     3481 aaggctataa ggactgatcg ttactttgct tttaagtaag aagtgaaagc attctgtttg
     3541 tagtctgaag agatccttta attccttcag ctttttagtg gcttatactg taggtccttt
     3601 ttattacata cagagtaaat atatctggtc tgatattgtt gcttgatggt attataactc
     3661 ctataattta cattagggaa agaaagttca acttcaagac ctttggcaaa tataaccacc
     3721 attctagatg tatctcagcc ttaacagaaa tcttacctcc atcacttgta cactaagaac
     3781 actcctataa aaggaatcag tccaacagaa gaattcttag cacagcattc agagcattgg
     3841 atcaacatag agcattttga tgctatttta tttttgttac ccctgacttt taaaaaatga
     3901 aataaaattt taatatttca cag
//
