LOCUS       NM_001416020            1803 bp    mRNA    linear   ROD 02-MAY-2024
DEFINITION  Mus musculus sorting nexin 6 (Snx6), transcript variant 2, mRNA.
ACCESSION   NM_001416020 XM_006516253
VERSION     NM_001416020.1
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 1803)
  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 1803)
  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 1803)
  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 1803)
  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 1803)
  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 1803)
  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 1803)
  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 1803)
  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 1803)
  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 XM_006516253.5.
            
            ##Evidence-Data-START##
            Transcript exon combination :: SRR13422592.361111.1,
                                           SRR7345562.4730665.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMN01164133 [ECO:0000348]
            ##Evidence-Data-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
            186-307             CT030142.10        79132-79253         c
            308-431             CT030142.10        76432-76555         c
            432-527             CT030142.10        73997-74092         c
            528-633             CT030142.10        72033-72138         c
            634-709             CT030142.10        68812-68887         c
            710-749             CT030142.10        65449-65488         c
            750-836             CT030142.10        62703-62789         c
            837-996             CT030142.10        60354-60513         c
            997-1082            CT030142.10        60195-60280         c
            1083-1803           CT030142.10        54752-55472         c
FEATURES             Location/Qualifiers
     source          1..1803
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="12"
                     /map="12 23.46 cM"
     gene            1..1803
                     /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..1136
                     /gene="Snx6"
                     /gene_synonym="2010006G21Rik; 2610032J07Rik;
                     2810425K19Rik"
                     /note="isoform 2 is encoded by transcript variant 2"
                     /codon_start=1
                     /product="sorting nexin-6 isoform 2"
                     /protein_id="NP_001402949.1"
                     /db_xref="GeneID:72183"
                     /db_xref="MGI:MGI:1919433"
                     /translation="MMEGLDDGPDFLSEEDRGLKAINVDLQSDAALQVDISDALSERD
                     RVKFTVHTKIPPAPPRPDFDASREKLQKLGEGEGSMTKEEFTKMKQELEAEYLAIFKK
                     TVAMHEVFLCRVAAHPILRKDLNFHVFLEYNQDLSVRGKNKKEKLEDFFKNMVKSADG
                     VIVSGVKDVDDFFEHERTFLLEYHNRVKDASAKSDRMTRSHKSAADDYNRIGSSLYAL
                     GTQDSTDICKFFLKVSELFDKTRKIEARVSADEDLKLSDLLKYYLRESQAAKDLLYRR
                     SRSLVDYENANKALDKARAKNKDVLQAETSQQLCCQKFEKISESAKQELIDFKTRRVA
                     AFRKNLVELAELELKHAKGNLQLLQNCLAVLNGDT"
     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..307
                     /gene="Snx6"
                     /gene_synonym="2010006G21Rik; 2610032J07Rik;
                     2810425K19Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            308..431
                     /gene="Snx6"
                     /gene_synonym="2010006G21Rik; 2610032J07Rik;
                     2810425K19Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            432..527
                     /gene="Snx6"
                     /gene_synonym="2010006G21Rik; 2610032J07Rik;
                     2810425K19Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            528..633
                     /gene="Snx6"
                     /gene_synonym="2010006G21Rik; 2610032J07Rik;
                     2810425K19Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            634..709
                     /gene="Snx6"
                     /gene_synonym="2010006G21Rik; 2610032J07Rik;
                     2810425K19Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            710..749
                     /gene="Snx6"
                     /gene_synonym="2010006G21Rik; 2610032J07Rik;
                     2810425K19Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            750..836
                     /gene="Snx6"
                     /gene_synonym="2010006G21Rik; 2610032J07Rik;
                     2810425K19Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            837..996
                     /gene="Snx6"
                     /gene_synonym="2010006G21Rik; 2610032J07Rik;
                     2810425K19Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            997..1082
                     /gene="Snx6"
                     /gene_synonym="2010006G21Rik; 2610032J07Rik;
                     2810425K19Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            1083..1803
                     /gene="Snx6"
                     /gene_synonym="2010006G21Rik; 2610032J07Rik;
                     2810425K19Rik"
                     /inference="alignment:Splign:2.1.0"
     regulatory      1769..1774
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Snx6"
                     /gene_synonym="2010006G21Rik; 2610032J07Rik;
                     2810425K19Rik"
                     /note="hexamer: AATAAA"
     polyA_site      1803
                     /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 caaagatccc accagcacca ccaagacctg attttgatgc ttcacgggaa aaactgcaga
      241 agcttggaga aggggaaggg tcgatgacaa aggaagaatt cacaaagatg aaacaggaac
      301 tggaagctga atacctggcg atcttcaaga agacagttgc aatgcatgag gtgttcctgt
      361 gtcgggttgc agcgcatcct attttgagaa aagatttaaa tttccacgtc ttcttggaat
      421 acaatcaaga tttgagtgtt cgaggaaaaa ataaaaaaga aaaactcgag gatttcttta
      481 aaaacatggt taagtcagca gatggagtca ttgtttctgg agtaaaggat gtagacgact
      541 tctttgagca cgaacgaaca ttccttttag agtatcacaa ccgagttaag gatgcatctg
      601 ctaagtcgga cagaatgaca agatctcaca aaagtgctgc tgatgattac aatagaattg
      661 ggtcttcatt gtatgcttta ggaactcagg actctacaga tatatgcaag tttttcctca
      721 aagtttcaga gctgtttgat aaaacaagaa aaatagaagc tcgggtgtct gctgacgagg
      781 acctcaagct ctctgaccta ttaaagtact acttgcggga gtctcaagca gctaaggacc
      841 tcctctatag aaggtctagg tcgctggtag actatgaaaa tgccaataaa gcactggaca
      901 aggcaagagc gaaaaacaaa gatgttctac aggctgaaac ttcccaacag ttgtgctgtc
      961 agaagtttga aaaaatatct gaatctgcaa aacaagaact gatagatttt aagacaagaa
     1021 gagttgctgc attcagaaaa aatttagtgg aacttgcaga actagaactg aagcatgcaa
     1081 agggcaacct tcagctcctt cagaactgcc ttgcggtttt aaatggagac acataggctt
     1141 cactctgcct tctgtcaaaa agggctgcct tcaaatccag tttgttttcc tgacgacctc
     1201 cctccggcat ctaagctcac tgggaacaac agagacagcg ggcacagtgc atcagctctt
     1261 cttctgagag acagtggagc agcagggctc accggctgca gggcagcggc ctgccacctc
     1321 gcactccacc ttccaagaag cccaaagttc taccctctct tttctttgag aagcctgtct
     1381 tactgtgttt atttcctatg tggcggttct gtggctgcag gccttattta cctaagaatc
     1441 gcttgtcctg ttttaacatt ctcaaagtac tctctgttca cacaagataa aggttgcctt
     1501 tctgaatatt ttttaagcat cctgttccct tagttctttc atgtatctgt gtaaagcgtc
     1561 ttaacgagac ttactttgaa ttaatgaacg tagaagtttc gggtcagact ttatgtaagc
     1621 tttataagta tgatctctga agaaaagcag atgcgttagt atgtttgcct taaacttgtg
     1681 gactaaacca atattgtaaa cgcccagaga cagcagtggc gttttgactc catgctcctt
     1741 gtatggctct ggaattcagg gtagcgataa taaatctact ccggcattat gctttacagt
     1801 gaa
//
