LOCUS       NM_001403648            4314 bp    mRNA    linear   ROD 13-FEB-2025
DEFINITION  Mus musculus synuclein, alpha interacting protein (synphilin)
            (Sncaip), transcript variant 6, mRNA.
ACCESSION   NM_001403648 XM_006526192
VERSION     NM_001403648.1
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 4314)
  AUTHORS   Dutta,D., Paidi,R.K., Raha,S., Roy,A., Chandra,S. and Pahan,K.
  TITLE     Treadmill exercise reduces alpha-synuclein spreading via PPARalpha
  JOURNAL   Cell Rep 40 (2), 111058 (2022)
   PUBMED   35830804
  REMARK    GeneRIF: Treadmill exercise reduces alpha-synuclein spreading via
            PPARalpha.
            Erratum:[Cell Rep. 2024 Aug 27;43(8):114546. doi:
            10.1016/j.celrep.2024.114546.. PMID: 39024097]
REFERENCE   2  (bases 1 to 4314)
  AUTHORS   Won,S.Y., Park,J.J., You,S.T., Hyeun,J.A., Kim,H.K., Jin,B.K.,
            McLean,C., Shin,E.Y. and Kim,E.G.
  TITLE     p21-activated kinase 4 controls the aggregation of alpha-synuclein
            by reducing the monomeric and aggregated forms of alpha-synuclein:
            involvement of the E3 ubiquitin ligase NEDD4-1
  JOURNAL   Cell Death Dis 13 (6), 575 (2022)
   PUBMED   35773260
  REMARK    GeneRIF: p21-activated kinase 4 controls the aggregation of
            alpha-synuclein by reducing the monomeric and aggregated forms of
            alpha-synuclein: involvement of the E3 ubiquitin ligase NEDD4-1.
            Publication Status: Online-Only
REFERENCE   3  (bases 1 to 4314)
  AUTHORS   Chen,D.D., Gao,L.P., Wu,Y.Z., Chen,J., Hu,C., Xiao,K., Chen,C.,
            Shi,Q. and Dong,X.P.
  TITLE     Accumulation of Prion and Abnormal Prion Protein Induces
            Hyperphosphorylation of alpha-Synuclein in the Brain Tissues from
            Prion Diseases and in the Cultured Cells
  JOURNAL   ACS Chem Neurosci 12 (20), 3838-3854 (2021)
   PUBMED   34595918
  REMARK    GeneRIF: Accumulation of Prion and Abnormal Prion Protein Induces
            Hyperphosphorylation of alpha-Synuclein in the Brain Tissues from
            Prion Diseases and in the Cultured Cells.
REFERENCE   4  (bases 1 to 4314)
  AUTHORS   Bedogni,F. and Hevner,R.F.
  TITLE     Cell-Type-Specific Gene Expression in Developing Mouse Neocortex:
            Intermediate Progenitors Implicated in Axon Development
  JOURNAL   Front Mol Neurosci 14, 686034 (2021)
   PUBMED   34321999
  REMARK    Publication Status: Online-Only
REFERENCE   5  (bases 1 to 4314)
  AUTHORS   Han,J.Y., Shin,C. and Choi,Y.P.
  TITLE     Preclinical Detection of Alpha-Synuclein Seeding Activity in the
            Colon of a Transgenic Mouse Model of Synucleinopathy by RT-QuIC
  JOURNAL   Viruses 13 (5), 759 (2021)
   PUBMED   33926043
  REMARK    GeneRIF: Preclinical Detection of Alpha-Synuclein Seeding Activity
            in the Colon of a Transgenic Mouse Model of Synucleinopathy by
            RT-QuIC.
            Publication Status: Online-Only
REFERENCE   6  (bases 1 to 4314)
  AUTHORS   Soehn,A.S., Franck,T., Biskup,S., Giaime,E., Melle,C., Rott,R.,
            Cebo,D., Kalbacher,H., Ott,E., Pahnke,J., Meitinger,T., Kruger,R.,
            Gasser,T., Berg,D., von Eggeling,F., Engelender,S., da Costa,C.A.
            and Riess,O.
  TITLE     Periphilin is a novel interactor of synphilin-1, a protein
            implicated in Parkinson's disease
  JOURNAL   Neurogenetics 11 (2), 203-215 (2010)
   PUBMED   19730898
REFERENCE   7  (bases 1 to 4314)
  AUTHORS   Nuber,S., Franck,T., Wolburg,H., Schumann,U., Casadei,N.,
            Fischer,K., Calaminus,C., Pichler,B.J., Chanarat,S., Teismann,P.,
            Schulz,J.B., Luft,A.R., Tomiuk,J., Wilbertz,J., Bornemann,A.,
            Kruger,R. and Riess,O.
  TITLE     Transgenic overexpression of the alpha-synuclein interacting
            protein synphilin-1 leads to behavioral and neuropathological
            alterations in mice
  JOURNAL   Neurogenetics 11 (1), 107-120 (2010)
   PUBMED   19760259
  REMARK    GeneRIF: synphilin-1 has a role in skill learning and motor
            performance
REFERENCE   8  (bases 1 to 4314)
  AUTHORS   Millien,G., Beane,J., Lenburg,M., Tsao,P.N., Lu,J., Spira,A. and
            Ramirez,M.I.
  TITLE     Characterization of the mid-foregut transcriptome identifies genes
            regulated during lung bud induction
  JOURNAL   Gene Expr Patterns 8 (2), 124-139 (2008)
   PUBMED   18023262
REFERENCE   9  (bases 1 to 4314)
  AUTHORS   Goldberg,M.S., Fleming,S.M., Palacino,J.J., Cepeda,C., Lam,H.A.,
            Bhatnagar,A., Meloni,E.G., Wu,N., Ackerson,L.C., Klapstein,G.J.,
            Gajendiran,M., Roth,B.L., Chesselet,M.F., Maidment,N.T.,
            Levine,M.S. and Shen,J.
  TITLE     Parkin-deficient mice exhibit nigrostriatal deficits but not loss
            of dopaminergic neurons
  JOURNAL   J Biol Chem 278 (44), 43628-43635 (2003)
   PUBMED   12930822
REFERENCE   10 (bases 1 to 4314)
  AUTHORS   O'Farrell,C., Pickford,F., Vink,L., McGowan,E. and Cookson,M.R.
  TITLE     Sequence conservation between mouse and human synphilin-1
  JOURNAL   Neurosci Lett 322 (1), 9-12 (2002)
   PUBMED   11958831
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            AC121943.3 and AC124178.3.
            
            On Apr 1, 2022 this sequence version replaced XM_006526192.5.
            
            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 :: SRR14777534.722514.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMN00849382, SAMN00849384
                                           [ECO:0000348]
            ##Evidence-Data-END##
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-826               AC121943.3         141291-142116
            827-929             AC124178.3         109069-109171
            930-1002            AC124178.3         122544-122616
            1003-1871           AC124178.3         139644-140512
            1872-2051           AC124178.3         142407-142586
            2052-2165           AC124178.3         156073-156186
            2166-2291           AC124178.3         165939-166064
            2292-2461           AC124178.3         169225-169394
            2462-2554           AC124178.3         176910-177002
            2555-3614           AC124178.3         177523-178582
            3615-3685           AC124178.3         179715-179785
            3686-4314           AC124178.3         186412-187040
FEATURES             Location/Qualifiers
     source          1..4314
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="18"
                     /map="18 28.27 cM"
     gene            1..4314
                     /gene="Sncaip"
                     /gene_synonym="2810407O15Rik; 4933427B05Rik; SYPH1"
                     /note="synuclein, alpha interacting protein (synphilin)"
                     /db_xref="GeneID:67847"
                     /db_xref="MGI:MGI:1915097"
     exon            1..826
                     /gene="Sncaip"
                     /gene_synonym="2810407O15Rik; 4933427B05Rik; SYPH1"
                     /inference="alignment:Splign:2.1.0"
     exon            827..929
                     /gene="Sncaip"
                     /gene_synonym="2810407O15Rik; 4933427B05Rik; SYPH1"
                     /inference="alignment:Splign:2.1.0"
     CDS             873..3770
                     /gene="Sncaip"
                     /gene_synonym="2810407O15Rik; 4933427B05Rik; SYPH1"
                     /note="isoform 1 is encoded by transcript variant 6;
                     alpha-synuclein-interacting protein; synphilin-1"
                     /codon_start=1
                     /product="synphilin-1 isoform 1"
                     /protein_id="NP_001390577.1"
                     /db_xref="GeneID:67847"
                     /db_xref="MGI:MGI:1915097"
                     /translation="MEAPEYLDLDEIDFSDDISYSVTSLKTIPALCRRCDSQNEDRSV
                     SSSGWNCGVSTLITNPQKPTGIADVYSKFRPVKRVSPLKHQPETLENNENEDQKNNTV
                     EYQKGGETDQGPQPEELSPEDGVGGLPGKGSEPSQALGELEHYDLDMDEILDVPYIKS
                     SQQLAPLTKVTSEKRILGLCTTINGLSAKTCPIASTENSTPNMTPFCVLSPVKSPHLR
                     KAPTALRDQHKLSTEDSESSPALGKCGPAYESENHSKDFLNKVFSDPHSRKIEKSGPD
                     CKLRSFHLQSSAAGAKTEEPINGMNWTNTQGTEERTEYLKKVRSILNIVNEGQISLLP
                     HLAADNLDKIHDENGNNLLHIAASKGHAECLQHLTSLMGEDCLNERNTEQLTPAGLAI
                     KNGQLECVRWMVSETEAIAELSCSKDFPSLIHYAGCYGQEKILLWLLQFMQEQGISLD
                     EVDREGNSAVHVASQHGYLGCIQTLVEYGANVTMQNHAGEKPSQSAERHGHTLCSRYL
                     VVVETCMSLASQVVKLTKQLKEQTVERVTLQSQLQQLLEAQKSEGKSLPSSPSSPSSP
                     ASTKSQWKALDTDEESTGKSKVGAQEGIQVLGSLSVSSRARTKGKDEDSDKILRQLLG
                     KEISENVCTQEKLSLEFQDAQASSRNSKKIPLEKRELKLARLRQLMQRSLSESDTDSN
                     NSEDPKNTPVKRADRPRPQPIVESVENVDSAESLHLMIKKHSLASGRRFPFGMKASKS
                     LDGHSPSPTSESSEPDLDSHGPGLGMTPPTQPSTEATQSSPDSTAAQKVATSPKSALK
                     SPSSKRRTSQNSKLRVTFEEPVVQMEQTGLELNGEKDKDKGRAPQRTSESGEQMKRPF
                     GTFRSIMESLSGNQNNNNNYQPASQLKTCTLPLTSLGRKTADAKGNPVSPASKGKNKA
                     AMYSSCIHLPSNALVEEHLRDYARHNDIKRNATKTYHMKHTAEPEPRELFL"
     exon            930..1002
                     /gene="Sncaip"
                     /gene_synonym="2810407O15Rik; 4933427B05Rik; SYPH1"
                     /inference="alignment:Splign:2.1.0"
     exon            1003..1871
                     /gene="Sncaip"
                     /gene_synonym="2810407O15Rik; 4933427B05Rik; SYPH1"
                     /inference="alignment:Splign:2.1.0"
     exon            1872..2051
                     /gene="Sncaip"
                     /gene_synonym="2810407O15Rik; 4933427B05Rik; SYPH1"
                     /inference="alignment:Splign:2.1.0"
     exon            2052..2165
                     /gene="Sncaip"
                     /gene_synonym="2810407O15Rik; 4933427B05Rik; SYPH1"
                     /inference="alignment:Splign:2.1.0"
     exon            2166..2291
                     /gene="Sncaip"
                     /gene_synonym="2810407O15Rik; 4933427B05Rik; SYPH1"
                     /inference="alignment:Splign:2.1.0"
     exon            2292..2461
                     /gene="Sncaip"
                     /gene_synonym="2810407O15Rik; 4933427B05Rik; SYPH1"
                     /inference="alignment:Splign:2.1.0"
     exon            2462..2554
                     /gene="Sncaip"
                     /gene_synonym="2810407O15Rik; 4933427B05Rik; SYPH1"
                     /inference="alignment:Splign:2.1.0"
     exon            2555..3614
                     /gene="Sncaip"
                     /gene_synonym="2810407O15Rik; 4933427B05Rik; SYPH1"
                     /inference="alignment:Splign:2.1.0"
     exon            3615..3685
                     /gene="Sncaip"
                     /gene_synonym="2810407O15Rik; 4933427B05Rik; SYPH1"
                     /inference="alignment:Splign:2.1.0"
     exon            3686..4314
                     /gene="Sncaip"
                     /gene_synonym="2810407O15Rik; 4933427B05Rik; SYPH1"
                     /inference="alignment:Splign:2.1.0"
     regulatory      4231..4236
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Sncaip"
                     /gene_synonym="2810407O15Rik; 4933427B05Rik; SYPH1"
                     /note="hexamer: AAGAAA"
     polyA_site      4258
                     /gene="Sncaip"
                     /gene_synonym="2810407O15Rik; 4933427B05Rik; SYPH1"
     regulatory      4285..4290
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Sncaip"
                     /gene_synonym="2810407O15Rik; 4933427B05Rik; SYPH1"
                     /note="hexamer: AATAAA"
     polyA_site      4314
                     /gene="Sncaip"
                     /gene_synonym="2810407O15Rik; 4933427B05Rik; SYPH1"
                     /note="major polyA site"
ORIGIN      
        1 actgtcggtc ctgcctggtg gttgcgtccc tgagctcagc gtcccgccgc cccgggtgtc
       61 cccgcccgcg cgcgcccgtt ggggggcccg gggtgcggcg ccggccgccc ggccgcattg
      121 tgacgtagcg gggccgcggc agcgcctccg ccgcccgccg ggtctcctgc gcccgccgct
      181 ctcgccgtct gtccgtccat ccctcccgcc gtcctcccgc gctccggtga gtccaggtcc
      241 caaccgcggg cgccgcaggg aggagaggga cgagggcagc ccgtgcaact ttgcaccggg
      301 cgacaccctg agggttttcg ggaccccggg ggcccccttt gtgcctcggg tcccttctgc
      361 tcggggccgc gcggtgccgc tgcagagagc tacaagagga gaacgttgtg gtaacccagg
      421 cagcttcacc ccgggggacc caagtcgctc ccgcctcgca atccctggct ctggtgcagg
      481 ggattgttct tttcattggc ccttgcgctg gcgttacgct tgctgctacc tcggatggtc
      541 ccggaggcgt ggatgggttg tgccaaggct cctaggagct gccagggagg ggcgaaggca
      601 tggtgatagc tacactagta accagaacaa taacaaacgt gaaggggatg ccgggtggtg
      661 tcgctacccg aggagagccc ctggcccatc atccccgaga cgcctaggct gccccgtcca
      721 gcctcggctc ctcctcccgg cgctgtccgg cgtcccggga ttgtccatgt cttagggaag
      781 gcttctttct gaccctctca gtggcggtga ctttcgtctg caggtggaaa ttataaatat
      841 tcgaccttac tcaaaatgta caaagaagaa taatggaagc ccctgaatac cttgatttgg
      901 atgaaatcga ctttagtgat gacatttctt attcagtcac ctctctcaag accatcccag
      961 cactgtgcag aagatgtgac tcacaaaacg aagacagatc agtttctagc tctggctgga
     1021 attgtggtgt ctcaactctc attacaaacc cacaaaagcc cactggaatc gctgatgtat
     1081 acagtaagtt ccgcccagtg aagcgagttt ctccactgaa gcatcagccg gagactctgg
     1141 agaacaacga aaatgaggac caaaagaaca atacggtgga ataccagaaa gggggggaga
     1201 ctgaccaggg cccccagcct gaggagctca gccctgaaga tggagtcggg gggttgccag
     1261 gcaaaggctc agagcccagc caagccctgg gcgagctgga gcactatgac ctcgacatgg
     1321 atgagattct cgatgtgcct tacattaaat ccagtcaaca gctggccccg ctcacgaagg
     1381 tgacttcgga gaaaaggatt ctgggtttat gcacaaccat caatggcctc tctgccaaaa
     1441 cctgccctat tgcaagcact gagaactcca cacccaacat gactccattt tgtgttcttt
     1501 ctcctgtgaa aagccctcac ttacggaaag cacctactgc cctccgggac cagcacaagc
     1561 tctctacaga agactccgag agctcgccag ctctgggtaa atgtggccct gcatatgaat
     1621 cagaaaacca cagtaaagac ttcttaaaca aggtttttag tgatccccat agtcggaaaa
     1681 ttgagaagtc tgggccagac tgcaagctca ggtccttcca cctgcaatct tcagcagcag
     1741 gagccaaaac agaggagccg atcaatggca tgaactggac caacacccaa ggcacggaag
     1801 aaagaactga gtacctgaag aaagtaagaa gcatactgaa cattgtcaac gaaggacaga
     1861 tatcgctctt gccacaccta gctgcagaca atctggacaa aattcacgat gagaacggaa
     1921 acaatctgtt acacattgct gcatcaaagg gccatgcaga atgcctgcag cacctcacgt
     1981 cactgatggg cgaagactgt ctgaatgaac ggaacacaga gcagctgact ccagcaggcc
     2041 tggccatcaa gaatggtcag ctggagtgtg ttcgctggat ggtgagtgag acagaagcca
     2101 ttgcggaatt gagttgttcc aaggatttcc caagccttat tcattacgca ggttgctatg
     2161 ggcaggaaaa gatccttctg tggcttcttc aattcatgca agaacaaggc atctcattgg
     2221 atgaagtgga ccgggaaggc aacagtgctg ttcatgtcgc ctcacaacat ggctaccttg
     2281 gatgcataca gaccctggtg gagtatggag cgaatgtcac aatgcagaac cacgctgggg
     2341 aaaagccctc ccagagtgct gagcggcacg gccacaccct atgctcccgg tacctcgtgg
     2401 tggtggagac ctgcatgtca ctggcctcac aagtggtaaa gttgaccaag cagctaaagg
     2461 agcagacagt ggagcgtgtc acactgcaga gtcaactcca acaacttcta gaagcccaga
     2521 aatcagaggg caagtccctg ccttcttcac ccagttcacc ctcctcacca gcttctacaa
     2581 agtcccagtg gaaagctcta gatacagatg aggagtctac aggcaaaagc aaagtgggag
     2641 cccaggaggg aatacaagtt cttggaagtt tgtcagtctc cagcagggct aggaccaaag
     2701 gaaaagatga agactcagat aaaatcctac gtcagttatt ggggaaagaa atatcagaga
     2761 atgtctgcac ccaggaaaag ctgtcactgg aattccagga tgctcaggca tcctctagga
     2821 attcgaaaaa aatccctcta gagaagaggg aactgaagct agccagactg aggcagctga
     2881 tgcagagatc gttgagtgaa tctgacacgg actcaaacaa ctctgaagat cccaaaaata
     2941 ctcctgtgaa aagagcagac aggccgaggc cacagcccat tgtagaaagc gtggagaatg
     3001 tagacagcgc agaaagctta cacctgatga taaagaaaca ctctctggca tcaggacgca
     3061 ggtttccttt tggtatgaaa gcctccaaat ccctggatgg acacagccca tctcccacct
     3121 cagagagcag tgaaccagac ttggactccc atggtccagg cctggggatg actcctccaa
     3181 cccagccttc cacagaagcc actcagtcca gtcccgacag taccgctgcc cagaaagttg
     3241 ccacaagccc caagagtgcc ctcaagtctc catcatccaa gcgccggaca tcccaaaact
     3301 caaaactcag agtgaccttt gaggaacctg tcgtacaaat ggaacaaact ggccttgaac
     3361 taaatggaga aaaagacaaa gataagggca gggcccccca gaggactagt gaatccggag
     3421 aacaaatgaa aaggcctttc ggaaccttcc gatccatcat ggagagttta agtggtaatc
     3481 agaacaacaa taataactac cagccagcca gccagctgaa gacctgcaca ctacccttga
     3541 catcccttgg aaggaagaca gcagatgcca agggaaatcc tgtgagcccg gcgagcaaag
     3601 gaaagaataa ggcagcgatg tacagcagct gtatccatct tccctctaat gcgctggttg
     3661 aagagcatct acgtgactat gcacggcata atgacatcaa aagaaacgca acgaaaacct
     3721 accacatgaa gcacactgct gagccagagc caagggaact cttcttataa attactctta
     3781 gcgtgattct cacacatgcc ctccggccac cattggaagc taatggactg tccactgtgg
     3841 caatcagacc ataagaacaa cacctcacca gtcgagcaga atatctggat gccttaaatt
     3901 tataatatga gacttgttat aagatacatt ttggaccata tctgtatata gaacttgttt
     3961 gttcatttgt ttttttttta atatactatt tgaaaacatg atcgggcaat gtatgcattg
     4021 aaacattgga cacttgtttg attcgatctt ctcaaagcac atctgccagg acctgacact
     4081 gttggtgttt tgtgaattgc atgaggattt gctaatgttg atattcactt tttccatcac
     4141 aagggcagct gcagctcagc tcattgaggc caggtcactg gttttatttt ctgtccagag
     4201 tgtttttctg tcatttctac ttttttaata aagaaaattg aacattttta acagccaact
     4261 ctgggcatgg ggcagcgact ttctaataaa tctgtgatgt gctgatttct aaaa
//
