LOCUS       NM_001033334            2499 bp    mRNA    linear   ROD 07-FEB-2025
DEFINITION  Mus musculus synapse differentiation inducing 1 like (Syndig1l),
            mRNA.
ACCESSION   NM_001033334 XM_891852 XM_906220
VERSION     NM_001033334.2
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 2499)
  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   2  (bases 1 to 2499)
  AUTHORS   Wang,N., Langfelder,P., Stricos,M., Ramanathan,L., Richman,J.B.,
            Vaca,R., Plascencia,M., Gu,X., Zhang,S., Tamai,T.K., Zhang,L.,
            Gao,F., Ouk,K., Lu,X., Ivanov,L.V., Vogt,T.F., Lu,Q.R.,
            Morton,A.J., Colwell,C.S., Aaronson,J.S., Rosinski,J., Horvath,S.
            and Yang,X.W.
  TITLE     Mapping brain gene coexpression in daytime transcriptomes unveils
            diurnal molecular networks and deciphers perturbation gene
            signatures
  JOURNAL   Neuron 110 (20), 3318-3338 (2022)
   PUBMED   36265442
REFERENCE   3  (bases 1 to 2499)
  AUTHORS   Dickinson,M.E., Flenniken,A.M., Ji,X., Teboul,L., Wong,M.D.,
            White,J.K., Meehan,T.F., Weninger,W.J., Westerberg,H., Adissu,H.,
            Baker,C.N., Bower,L., Brown,J.M., Caddle,L.B., Chiani,F., Clary,D.,
            Cleak,J., Daly,M.J., Denegre,J.M., Doe,B., Dolan,M.E., Edie,S.M.,
            Fuchs,H., Gailus-Durner,V., Galli,A., Gambadoro,A., Gallegos,J.,
            Guo,S., Horner,N.R., Hsu,C.W., Johnson,S.J., Kalaga,S., Keith,L.C.,
            Lanoue,L., Lawson,T.N., Lek,M., Mark,M., Marschall,S., Mason,J.,
            McElwee,M.L., Newbigging,S., Nutter,L.M., Peterson,K.A.,
            Ramirez-Solis,R., Rowland,D.J., Ryder,E., Samocha,K.E.,
            Seavitt,J.R., Selloum,M., Szoke-Kovacs,Z., Tamura,M., Trainor,A.G.,
            Tudose,I., Wakana,S., Warren,J., Wendling,O., West,D.B., Wong,L.,
            Yoshiki,A., MacArthur,D.G., Tocchini-Valentini,G.P., Gao,X.,
            Flicek,P., Bradley,A., Skarnes,W.C., Justice,M.J., Parkinson,H.E.,
            Moore,M., Wells,S., Braun,R.E., Svenson,K.L., de Angelis,M.H.,
            Herault,Y., Mohun,T., Mallon,A.M., Henkelman,R.M., Brown,S.D.,
            Adams,D.J., Lloyd,K.C., McKerlie,C., Beaudet,A.L., Bucan,M. and
            Murray,S.A.
  CONSRTM   International Mouse Phenotyping Consortium; Jackson Laboratory;
            Infrastructure Nationale PHENOMIN, Institut Clinique de la Souris
            (ICS); Charles River Laboratories; MRC Harwell; Toronto Centre for
            Phenogenomics; Wellcome Trust Sanger Institute; RIKEN BioResource
            Center
  TITLE     High-throughput discovery of novel developmental phenotypes
  JOURNAL   Nature 537 (7621), 508-514 (2016)
   PUBMED   27626380
  REMARK    Erratum:[Nature. 2017 Nov 16;551(7680):398. doi:
            10.1038/nature24643.. PMID: 29144450]
REFERENCE   4  (bases 1 to 2499)
  AUTHORS   Koscielny,G., Yaikhom,G., Iyer,V., Meehan,T.F., Morgan,H.,
            Atienza-Herrero,J., Blake,A., Chen,C.K., Easty,R., Di Fenza,A.,
            Fiegel,T., Grifiths,M., Horne,A., Karp,N.A., Kurbatova,N.,
            Mason,J.C., Matthews,P., Oakley,D.J., Qazi,A., Regnart,J.,
            Retha,A., Santos,L.A., Sneddon,D.J., Warren,J., Westerberg,H.,
            Wilson,R.J., Melvin,D.G., Smedley,D., Brown,S.D., Flicek,P.,
            Skarnes,W.C., Mallon,A.M. and Parkinson,H.
  TITLE     The International Mouse Phenotyping Consortium Web Portal, a
            unified point of access for knockout mice and related phenotyping
            data
  JOURNAL   Nucleic Acids Res 42 (Database issue), D802-D809 (2014)
   PUBMED   24194600
REFERENCE   5  (bases 1 to 2499)
  AUTHORS   Galvan,L., Lepejova,N., Gaillard,M.C., Malgorn,C., Guillermier,M.,
            Houitte,D., Bonvento,G., Petit,F., Dufour,N., Hery,P., Gerard,M.,
            Elalouf,J.M., Deglon,N., Brouillet,E. and de Chaldee,M.
  TITLE     Capucin does not modify the toxicity of a mutant Huntingtin
            fragment in vivo
  JOURNAL   Neurobiol Aging 33 (8), 1845 (2012)
   PUBMED   22365050
REFERENCE   6  (bases 1 to 2499)
  AUTHORS   Kay,J.N., Chu,M.W. and Sanes,J.R.
  TITLE     MEGF10 and MEGF11 mediate homotypic interactions required for
            mosaic spacing of retinal neurons
  JOURNAL   Nature 483 (7390), 465-469 (2012)
   PUBMED   22407321
  REMARK    Publication Status: Online-Only
REFERENCE   7  (bases 1 to 2499)
  AUTHORS   Sallman Almen,M., Bringeland,N., Fredriksson,R. and Schioth,H.B.
  TITLE     The dispanins: a novel gene family of ancient origin that contains
            14 human members
  JOURNAL   PLoS One 7 (2), e31961 (2012)
   PUBMED   22363774
REFERENCE   8  (bases 1 to 2499)
  AUTHORS   Kalashnikova,E., Lorca,R.A., Kaur,I., Barisone,G.A., Li,B.,
            Ishimaru,T., Trimmer,J.S., Mohapatra,D.P. and Diaz,E.
  TITLE     SynDIG1: an activity-regulated, AMPA- receptor-interacting
            transmembrane protein that regulates excitatory synapse development
  JOURNAL   Neuron 65 (1), 80-93 (2010)
   PUBMED   20152115
REFERENCE   9  (bases 1 to 2499)
  AUTHORS   de Chaldee,M., Brochier,C., Van de Vel,A., Caudy,N.,
            Luthi-Carter,R., Gaillard,M.C. and Elalouf,J.M.
  TITLE     Capucin: a novel striatal marker down-regulated in rodent models of
            Huntington disease
  JOURNAL   Genomics 87 (2), 200-207 (2006)
   PUBMED   16359841
  REMARK    GeneRIF: significant down-regulation of capucin mRNA levels in two
            rodent models of Huntington disease, indicating a possible
            contribution to the pathogenesis of this disorder
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            AC159641.2.
            
            On Mar 21, 2007 this sequence version replaced NM_001033334.1.
            
            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 :: AK140195.1, AY993934.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMN01164131 [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            RefSeq Select criteria :: based on conservation, expression
            ##RefSeq-Attributes-END##
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-282               AC159641.2         47873-48154
            283-760             AC159641.2         65828-66305
            761-901             AC159641.2         67514-67654
            902-2499            AC159641.2         67805-69402
FEATURES             Location/Qualifiers
     source          1..2499
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="12"
                     /map="12 39.33 cM"
     gene            1..2499
                     /gene="Syndig1l"
                     /gene_synonym="DSPC1; Gm261; SynDIG2; Tmem90a"
                     /note="synapse differentiation inducing 1 like"
                     /db_xref="GeneID:627191"
                     /db_xref="MGI:MGI:2685107"
     exon            1..282
                     /gene="Syndig1l"
                     /gene_synonym="DSPC1; Gm261; SynDIG2; Tmem90a"
                     /inference="alignment:Splign:2.1.0"
     exon            283..760
                     /gene="Syndig1l"
                     /gene_synonym="DSPC1; Gm261; SynDIG2; Tmem90a"
                     /inference="alignment:Splign:2.1.0"
     CDS             347..1060
                     /gene="Syndig1l"
                     /gene_synonym="DSPC1; Gm261; SynDIG2; Tmem90a"
                     /note="capucin; caudate and putamen-enriched protein;
                     synapse differentiation-induced protein 2; dispanin
                     subfamily C member 1; transmembrane protein 90a"
                     /codon_start=1
                     /product="synapse differentiation-inducing gene protein
                     1-like"
                     /protein_id="NP_001028506.1"
                     /db_xref="CCDS:CCDS26049.1"
                     /db_xref="GeneID:627191"
                     /db_xref="MGI:MGI:2685107"
                     /translation="MESLSELQNPLLPRSPTHLHRPYPYPEAPPGWSCQEQLYSFLLG
                     GAGPARAHQLLDPGSLQLAVEAWYRPSCLLGRDKVKEPKAGSCETSFTEAREPLAGPA
                     EEGSEPGQAAEDVTIHTVSYGVQEELQGQEDSQEEESDGTSSESECEDAFLTLPPRDH
                     LGLTLFSMLCCFWPLGIAAFYFSQGTSKAISKGDFRLASTTSRRALFLATLSIAVGAG
                     LYVAVVVALAAYMSQNGHG"
     exon            761..901
                     /gene="Syndig1l"
                     /gene_synonym="DSPC1; Gm261; SynDIG2; Tmem90a"
                     /inference="alignment:Splign:2.1.0"
     exon            902..2499
                     /gene="Syndig1l"
                     /gene_synonym="DSPC1; Gm261; SynDIG2; Tmem90a"
                     /inference="alignment:Splign:2.1.0"
     regulatory      2477..2482
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Syndig1l"
                     /gene_synonym="DSPC1; Gm261; SynDIG2; Tmem90a"
                     /note="hexamer: AATAAA"
     polyA_site      2495
                     /gene="Syndig1l"
                     /gene_synonym="DSPC1; Gm261; SynDIG2; Tmem90a"
                     /note="major polyA site"
ORIGIN      
        1 aagtcggcgc ggagccgcct cgggccgggc tgagagctga gcgcggcgga gccgggatgc
       61 ggggctcccg ggaccgtgta gggcgcgcgg ggcggcggcg ggcgagcggg agctgtccac
      121 ggttctgaag cagcggcggc gacagcggca gggacgcggg ccgggagcag ggagctctcc
      181 tggaagcttc accgcggccg cgaggcgggg acgccgttgc tcgccggccc atgcccggtc
      241 cccgagcccc gcgaggaggc gggacggtcc gcagagcgac aggctccgtg aagactgcgt
      301 ggtggccgga gactcccctc cctggcgacg tcctgcctgc ggaaccatgg agagcctgag
      361 tgaactacag aacccactgc tgcctagaag ccccacccac ctccacagac cctaccccta
      421 cccggaggcc ccgcccggct ggtcctgcca ggagcagctt tattcctttc tcctaggagg
      481 tgctggtccc gcccgtgccc accagctcct agacccaggg tccctgcaac tggccgtgga
      541 ggcctggtat cggcctagct gcctcctggg gagggacaag gtcaaagagc ccaaagcagg
      601 cagctgtgag accagcttca ccgaagccag ggaaccttta gcgggacctg cagaggaggg
      661 ctcagaacct ggtcaagctg cggaggacgt aaccatccac actgtgtcct acggggttca
      721 agaggagttg cagggccagg aggacagtca ggaggaggag agcgatggga cctccagcga
      781 gagtgagtgt gaagacgcct tcctcaccct gcctcccagg gaccacttgg gactcactct
      841 cttctccatg ctctgctgct tctggcctct gggcattgct gctttctatt tctcccaggg
      901 gaccagcaag gccatctcca aaggggactt ccgcctggcc agcaccacct ctcgccgagc
      961 tctcttcctg gccacactct ccatcgctgt gggggccggt ctctatgtgg ctgtggtggt
     1021 agctctggct gcttacatgt cccagaatgg ccatggctag tggtcagtag gactatcatc
     1081 ccagctctcc tggcctaccg gtgaaaagct cagaactgtg tattctatgg agcaccttgg
     1141 ccctgaagag aacctgcgac aatagcttgc tgaggagaga cctcccgttc tgcagcccac
     1201 acaggggcca tcttgccctc ttgcccactg ttttccagtc ccagagcagg ctgggtgtgg
     1261 ataggaagca ggtgcagcag ggttgtccaa gaggcctagc ctggtgtact ctgcccactc
     1321 cctacaggac ctctgcccca taggcaactc agtctctact tgccatcttc cccacagaga
     1381 atgagcagga gcatccagga aggagaaaga attcccaagg gatcaagaac ctggctagac
     1441 ttttcagtta agagggtcct catctgtgca cattgtgagc agctgcccca ccccccatcc
     1501 cctcaaggcc tgagaccctc caaccaggaa agaaaaccat gggccccagc catctcttgc
     1561 tctttctgac tctggatact gcatgtctcc ctgttactgt ggaagacgct ctgcggtgtc
     1621 tcccagatag agatggagcc agagagctct gtaatgaggg caggttgcta aggcttttct
     1681 ataccaggaa aaaaaaaaaa aaaaaaaaaa aaaaaggcag atacagtgac agagaggata
     1741 gaggcctggg atactgcagg atcacatgac ctcccgttct tcacccacca tactttctgg
     1801 gctctgctgg aagggccctg agatggtacc cgacctgtgg agactgagag ggtactgtta
     1861 ctccctagct acagcgcgca gggtcctgga tccagcctca tccagaaaag gatgagaagg
     1921 gactgggata cagacagagg aggaacatag acagatgcct aaggaattgg cttctccata
     1981 actctccatg ctggtgggca gggtgtgcca gagcctccca tggaggttcc caggatgctt
     2041 ggatcctgcc tggagtatcc agtctggagt taattttgca gccattccta aaccctccag
     2101 caacctgagc agaaaggcca agcctttctc tccacctgag atatttcccc atctctgaat
     2161 gatggggcag tggcggtaat ggggcctggg caccttcact gataaccgcc actcacgact
     2221 gctttcaacc ccctccacca ccaccaccac cccccccccc cgggcactaa gagatgtcag
     2281 agagcaaagg gcgtgtacag tgggaaggca ggcctgctgg gacttaagct atggaccatc
     2341 gtgcatgatt tgggggacct ggccatttcc ttgccctgtc tagccccaca ccctccccac
     2401 cttcctcact tcaggggttg cccactcccc acacccgcag ttttaatgtc cctctacttt
     2461 ctttatttat cctggtaata aacttttatg taacacctg
//
