LOCUS       NM_026998               1914 bp    mRNA    linear   ROD 02-MAY-2024
DEFINITION  Mus musculus sorting nexin 6 (Snx6), transcript variant 1, mRNA.
ACCESSION   NM_026998 NM_028144 NM_144951 XM_982798 XM_993593
VERSION     NM_026998.4
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 1914)
  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 1914)
  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   3  (bases 1 to 1914)
  AUTHORS   David,D.J., Pagliuso,A., Radoshevich,L., Nahori,M.A. and Cossart,P.
  TITLE     Lmo1656 is a secreted virulence factor of Listeria monocytogenes
            that interacts with the sorting nexin 6-BAR complex
  JOURNAL   J Biol Chem 293 (24), 9265-9276 (2018)
   PUBMED   29666193
  REMARK    GeneRIF: This study identified sorting nexin 6 (SNX6), an endosomal
            sorting component and BAR domain-containing protein, as a host cell
            interactor of Lmol656.
REFERENCE   4  (bases 1 to 1914)
  AUTHORS   Niu,Y., Dai,Z., Liu,W., Zhang,C., Yang,Y., Guo,Z., Li,X., Xu,C.,
            Huang,X., Wang,Y., Shi,Y.S. and Liu,J.J.
  TITLE     Ablation of SNX6 leads to defects in synaptic function of CA1
            pyramidal neurons and spatial memory
  JOURNAL   Elife 6, e20991 (2017)
   PUBMED   28134614
  REMARK    GeneRIF: The authors show that SNX6 functions independently of
            retromer to regulate distribution of Homer1b/c in the dendritic
            shaft.
            Publication Status: Online-Only
REFERENCE   5  (bases 1 to 1914)
  AUTHORS   Gonzalez-Granado,J.M., Navarro-Puche,A., Molina-Sanchez,P.,
            Blanco-Berrocal,M., Viana,R., Font de Mora,J. and Andres,V.
  TITLE     Sorting nexin 6 enhances lamin a synthesis and incorporation into
            the nuclear envelope
  JOURNAL   PLoS One 9 (12), e115571 (2014)
   PUBMED   25535984
  REMARK    GeneRIF: These results identify SNX6 as a key regulator of lamin A
            synthesis and incorporation into the nuclear envelope.
            Publication Status: Online-Only
REFERENCE   6  (bases 1 to 1914)
  AUTHORS   Hao,X., Wang,Y., Ren,F., Zhu,S., Ren,Y., Jia,B., Li,Y.P., Shi,Y.
            and Chang,Z.
  TITLE     SNX25 regulates TGF-beta signaling by enhancing the receptor
            degradation
  JOURNAL   Cell Signal 23 (5), 935-946 (2011)
   PUBMED   21266196
REFERENCE   7  (bases 1 to 1914)
  AUTHORS   Jiang,B., Kumar,S.D., Loh,W.T., Manikandan,J., Ling,E.A., Tay,S.S.
            and Dheen,S.T.
  TITLE     Global gene expression analysis of cranial neural tubes in embryos
            of diabetic mice
  JOURNAL   J Neurosci Res 86 (16), 3481-3493 (2008)
   PUBMED   18655203
REFERENCE   8  (bases 1 to 1914)
  AUTHORS   Cavet,M.E., Pang,J., Yin,G. and Berk,B.C.
  TITLE     An epidermal growth factor (EGF) -dependent interaction between
            GIT1 and sorting nexin 6 promotes degradation of the EGF receptor
  JOURNAL   FASEB J 22 (10), 3607-3616 (2008)
   PUBMED   18523162
  REMARK    GeneRIF: These data demonstrate an endosomal, EGF-regulated
            interaction between SNX6 and GIT1 that enhances degradation of the
            EGFR, and thereby alters EGFR signaling.
REFERENCE   9  (bases 1 to 1914)
  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
            CT030142.10.
            
            On Jan 10, 2023 this sequence version replaced NM_026998.3.
            
            ##Evidence-Data-START##
            Transcript exon combination :: BC061028.1, AK013158.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMN01164133 [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            RefSeq Select criteria :: based on conservation, expression,
                                      longest protein
            ##RefSeq-Attributes-END##
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-32                CT030142.10        104061-104092       c
            33-80               CT030142.10        103867-103914       c
            81-185              CT030142.10        92428-92532         c
            186-296             CT030142.10        91816-91926         c
            297-418             CT030142.10        79132-79253         c
            419-542             CT030142.10        76432-76555         c
            543-638             CT030142.10        73997-74092         c
            639-744             CT030142.10        72033-72138         c
            745-820             CT030142.10        68812-68887         c
            821-860             CT030142.10        65449-65488         c
            861-947             CT030142.10        62703-62789         c
            948-1107            CT030142.10        60354-60513         c
            1108-1193           CT030142.10        60195-60280         c
            1194-1914           CT030142.10        54752-55472         c
FEATURES             Location/Qualifiers
     source          1..1914
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="12"
                     /map="12 23.46 cM"
     gene            1..1914
                     /gene="Snx6"
                     /gene_synonym="2010006G21Rik; 2610032J07Rik;
                     2810425K19Rik"
                     /note="sorting nexin 6"
                     /db_xref="GeneID:72183"
                     /db_xref="MGI:MGI:1919433"
     exon            1..32
                     /gene="Snx6"
                     /gene_synonym="2010006G21Rik; 2610032J07Rik;
                     2810425K19Rik"
                     /inference="alignment:Splign:2.1.0"
     CDS             27..1247
                     /gene="Snx6"
                     /gene_synonym="2010006G21Rik; 2610032J07Rik;
                     2810425K19Rik"
                     /note="isoform 1 is encoded by transcript variant 1"
                     /codon_start=1
                     /product="sorting nexin-6 isoform 1"
                     /protein_id="NP_081274.2"
                     /db_xref="CCDS:CCDS36447.1"
                     /db_xref="GeneID:72183"
                     /db_xref="MGI:MGI:1919433"
                     /translation="MMEGLDDGPDFLSEEDRGLKAINVDLQSDAALQVDISDALSERD
                     RVKFTVHTKSSLPNFKQNEFSVVRQHEEFIWLHDSFVENEDYAGYIIPPAPPRPDFDA
                     SREKLQKLGEGEGSMTKEEFTKMKQELEAEYLAIFKKTVAMHEVFLCRVAAHPILRKD
                     LNFHVFLEYNQDLSVRGKNKKEKLEDFFKNMVKSADGVIVSGVKDVDDFFEHERTFLL
                     EYHNRVKDASAKSDRMTRSHKSAADDYNRIGSSLYALGTQDSTDICKFFLKVSELFDK
                     TRKIEARVSADEDLKLSDLLKYYLRESQAAKDLLYRRSRSLVDYENANKALDKARAKN
                     KDVLQAETSQQLCCQKFEKISESAKQELIDFKTRRVAAFRKNLVELAELELKHAKGNL
                     QLLQNCLAVLNGDT"
     exon            33..80
                     /gene="Snx6"
                     /gene_synonym="2010006G21Rik; 2610032J07Rik;
                     2810425K19Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            81..185
                     /gene="Snx6"
                     /gene_synonym="2010006G21Rik; 2610032J07Rik;
                     2810425K19Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            186..296
                     /gene="Snx6"
                     /gene_synonym="2010006G21Rik; 2610032J07Rik;
                     2810425K19Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            297..418
                     /gene="Snx6"
                     /gene_synonym="2010006G21Rik; 2610032J07Rik;
                     2810425K19Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            419..542
                     /gene="Snx6"
                     /gene_synonym="2010006G21Rik; 2610032J07Rik;
                     2810425K19Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            543..638
                     /gene="Snx6"
                     /gene_synonym="2010006G21Rik; 2610032J07Rik;
                     2810425K19Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            639..744
                     /gene="Snx6"
                     /gene_synonym="2010006G21Rik; 2610032J07Rik;
                     2810425K19Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            745..820
                     /gene="Snx6"
                     /gene_synonym="2010006G21Rik; 2610032J07Rik;
                     2810425K19Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            821..860
                     /gene="Snx6"
                     /gene_synonym="2010006G21Rik; 2610032J07Rik;
                     2810425K19Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            861..947
                     /gene="Snx6"
                     /gene_synonym="2010006G21Rik; 2610032J07Rik;
                     2810425K19Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            948..1107
                     /gene="Snx6"
                     /gene_synonym="2010006G21Rik; 2610032J07Rik;
                     2810425K19Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            1108..1193
                     /gene="Snx6"
                     /gene_synonym="2010006G21Rik; 2610032J07Rik;
                     2810425K19Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            1194..1914
                     /gene="Snx6"
                     /gene_synonym="2010006G21Rik; 2610032J07Rik;
                     2810425K19Rik"
                     /inference="alignment:Splign:2.1.0"
     regulatory      1880..1885
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Snx6"
                     /gene_synonym="2010006G21Rik; 2610032J07Rik;
                     2810425K19Rik"
                     /note="hexamer: AATAAA"
     polyA_site      1914
                     /gene="Snx6"
                     /gene_synonym="2010006G21Rik; 2610032J07Rik;
                     2810425K19Rik"
                     /note="major polyA site"
ORIGIN      
        1 gcgcgagccc tggactcgaa gcagccatga tggaaggcct ggatgacggc cccgacttcc
       61 tctcggagga agaccgcgga cttaaagcaa taaatgtaga tctccagagt gacgctgctc
      121 tgcaggtgga catttcagac gcgctcagtg agagggatag agtcaagttc accgttcaca
      181 caaagagttc attgccaaat tttaagcaaa atgaattttc agtcgttcga caacatgagg
      241 aatttatctg gcttcatgat tcctttgttg aaaatgaaga ctatgcaggt tacattatcc
      301 caccagcacc accaagacct gattttgatg cttcacggga aaaactgcag aagcttggag
      361 aaggggaagg gtcgatgaca aaggaagaat tcacaaagat gaaacaggaa ctggaagctg
      421 aatacctggc gatcttcaag aagacagttg caatgcatga ggtgttcctg tgtcgggttg
      481 cagcgcatcc tattttgaga aaagatttaa atttccacgt cttcttggaa tacaatcaag
      541 atttgagtgt tcgaggaaaa aataaaaaag aaaaactcga ggatttcttt aaaaacatgg
      601 ttaagtcagc agatggagtc attgtttctg gagtaaagga tgtagacgac ttctttgagc
      661 acgaacgaac attcctttta gagtatcaca accgagttaa ggatgcatct gctaagtcgg
      721 acagaatgac aagatctcac aaaagtgctg ctgatgatta caatagaatt gggtcttcat
      781 tgtatgcttt aggaactcag gactctacag atatatgcaa gtttttcctc aaagtttcag
      841 agctgtttga taaaacaaga aaaatagaag ctcgggtgtc tgctgacgag gacctcaagc
      901 tctctgacct attaaagtac tacttgcggg agtctcaagc agctaaggac ctcctctata
      961 gaaggtctag gtcgctggta gactatgaaa atgccaataa agcactggac aaggcaagag
     1021 cgaaaaacaa agatgttcta caggctgaaa cttcccaaca gttgtgctgt cagaagtttg
     1081 aaaaaatatc tgaatctgca aaacaagaac tgatagattt taagacaaga agagttgctg
     1141 cattcagaaa aaatttagtg gaacttgcag aactagaact gaagcatgca aagggcaacc
     1201 ttcagctcct tcagaactgc cttgcggttt taaatggaga cacataggct tcactctgcc
     1261 ttctgtcaaa aagggctgcc ttcaaatcca gtttgttttc ctgacgacct ccctccggca
     1321 tctaagctca ctgggaacaa cagagacagc gggcacagtg catcagctct tcttctgaga
     1381 gacagtggag cagcagggct caccggctgc agggcagcgg cctgccacct cgcactccac
     1441 cttccaagaa gcccaaagtt ctaccctctc ttttctttga gaagcctgtc ttactgtgtt
     1501 tatttcctat gtggcggttc tgtggctgca ggccttattt acctaagaat cgcttgtcct
     1561 gttttaacat tctcaaagta ctctctgttc acacaagata aaggttgcct ttctgaatat
     1621 tttttaagca tcctgttccc ttagttcttt catgtatctg tgtaaagcgt cttaacgaga
     1681 cttactttga attaatgaac gtagaagttt cgggtcagac tttatgtaag ctttataagt
     1741 atgatctctg aagaaaagca gatgcgttag tatgtttgcc ttaaacttgt ggactaaacc
     1801 aatattgtaa acgcccagag acagcagtgg cgttttgact ccatgctcct tgtatggctc
     1861 tggaattcag ggtagcgata ataaatctac tccggcatta tgctttacag tgaa
//
