LOCUS       NM_018875                893 bp    mRNA    linear   ROD 02-MAY-2024
DEFINITION  Mus musculus sorting nexin 12 (Snx12), transcript variant 3, mRNA.
ACCESSION   NM_018875 XM_983086
VERSION     NM_018875.3
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 893)
  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 893)
  AUTHORS   Mizutani,R., Nakamura,K., Kato,N., Aizawa,K., Miyamoto,Y.,
            Torii,T., Yamauchi,J. and Tanoue,A.
  TITLE     Expression of sorting nexin 12 is regulated in developing cerebral
            cortical neurons
  JOURNAL   J Neurosci Res 90 (4), 721-731 (2012)
   PUBMED   22109349
  REMARK    GeneRIF: These results suggest that SNX12 regulates neurite
            formation during cerebral cortical development.
REFERENCE   3  (bases 1 to 893)
  AUTHORS   Cox,B.J., Vollmer,M., Tamplin,O., Lu,M., Biechele,S.,
            Gertsenstein,M., van Campenhout,C., Floss,T., Kuhn,R., Wurst,W.,
            Lickert,H. and Rossant,J.
  TITLE     Phenotypic annotation of the mouse X chromosome
  JOURNAL   Genome Res 20 (8), 1154-1164 (2010)
   PUBMED   20548051
REFERENCE   4  (bases 1 to 893)
  AUTHORS   Lin,Q., Donahue,S.L., Moore-Jarrett,T., Cao,S., Osipovich,A.B. and
            Ruley,H.E.
  TITLE     Mutagenesis of diploid mammalian genes by gene entrapment
  JOURNAL   Nucleic Acids Res 34 (20), e139 (2006)
   PUBMED   17062627
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            AL671926.11.
            
            On Mar 31, 2022 this sequence version replaced NM_018875.2.
            
            Transcript Variant: This variant (3) differs in the 3' coding
            region and UTR, compared to variant 1. It encodes isoform 3 which
            has a longer, distinct C-terminus, compared to isoform 1. An
            in-frame AUG is located 45 codons upstream of the annotated
            translation start site but is not being annotated as a start site
            since it is not conserved and is in a weak Kozak sequence context.
            
            ##Evidence-Data-START##
            Transcript exon combination :: BC002009.1, AK146833.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMN01164134, SAMN01164138
                                           [ECO:0000348]
            ##Evidence-Data-END##
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-193               AL671926.11        113138-113330       c
            194-289             AL671926.11        106359-106454       c
            290-414             AL671926.11        105277-105401       c
            415-505             AL671926.11        104650-104740       c
            506-893             AL671926.11        102835-103222       c
FEATURES             Location/Qualifiers
     source          1..893
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="X"
                     /map="X 43.72 cM"
     gene            1..893
                     /gene="Snx12"
                     /gene_synonym="2610001F05Rik; SDP8"
                     /note="sorting nexin 12"
                     /db_xref="GeneID:55988"
                     /db_xref="MGI:MGI:1919331"
     exon            1..193
                     /gene="Snx12"
                     /gene_synonym="2610001F05Rik; SDP8"
                     /inference="alignment:Splign:2.1.0"
     CDS             29..529
                     /gene="Snx12"
                     /gene_synonym="2610001F05Rik; SDP8"
                     /note="isoform 3 is encoded by transcript variant 3"
                     /codon_start=1
                     /product="sorting nexin-12 isoform 3"
                     /protein_id="NP_061363.2"
                     /db_xref="CCDS:CCDS41076.1"
                     /db_xref="GeneID:55988"
                     /db_xref="MGI:MGI:1919331"
                     /translation="MSDTAVADTRRLNSKPQDLTDAYGPPSNFLEIDIFNPQTVGVGR
                     ARFTTYEVRMRTNLPIFKLKESCVRRRYSDFEWLKNELERDSKIVVPPLPGKALKRQL
                     PFRGDEGIFEESFIEERRQGLEQFINKIAGHPLAQNERCLHMFLQEEAIDRNYVPGKV
                     LGEKDC"
     exon            194..289
                     /gene="Snx12"
                     /gene_synonym="2610001F05Rik; SDP8"
                     /inference="alignment:Splign:2.1.0"
     exon            290..414
                     /gene="Snx12"
                     /gene_synonym="2610001F05Rik; SDP8"
                     /inference="alignment:Splign:2.1.0"
     exon            415..505
                     /gene="Snx12"
                     /gene_synonym="2610001F05Rik; SDP8"
                     /inference="alignment:Splign:2.1.0"
     exon            506..893
                     /gene="Snx12"
                     /gene_synonym="2610001F05Rik; SDP8"
                     /inference="alignment:Splign:2.1.0"
     regulatory      874..879
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Snx12"
                     /gene_synonym="2610001F05Rik; SDP8"
                     /note="hexamer: ATTAAA"
     polyA_site      893
                     /gene="Snx12"
                     /gene_synonym="2610001F05Rik; SDP8"
                     /note="major polyA site"
ORIGIN      
        1 cgccggtacc gggctcttct tcggaaagat gtcggacacc gcagtggctg acactaggcg
       61 ccttaactcg aagccccaag acctgaccga cgcttacggg ccgcccagta acttcctgga
      121 gatagacatc tttaatccac agacggtggg cgtgggccgc gcgcgcttca ccacctatga
      181 ggttcgcatg cggacaaacc tacccatctt caagctgaaa gaatcctgtg tacggcgacg
      241 ctatagtgac tttgagtggc tgaaaaatga gctggagcga gatagtaaga tcgtagtacc
      301 accactgcct gggaaagcct tgaagcggca gctccctttc cgaggagatg aagggatctt
      361 tgaggagtct ttcattgaag aaaggaggca aggcctcgaa cagtttatta acaaaattgc
      421 tgggcaccca ctggctcaga atgaacgctg tctacacatg ttcctgcagg aggaggcaat
      481 tgataggaac tacgtccctg ggaaggtcct tggggaaaag gattgctgag tctggtgtga
      541 ccctggtcag agagatcagg attagatttt gacaggggac ttggaaccca cctcagtgtt
      601 gaagatcctt gagatagatt agctctctag ctgctgagcc catgctggta gctgagtagc
      661 ccctttccca cctcgccagt gtcggtgtcc ttgctgcctt ttgattttta tcctctgtta
      721 cagatttttt ttttaaagat ttctcctttc attgtgcaca agtgctgaga ctctgaggct
      781 ccatttcttc tgtgtatata tcctgacttg gggcttttat tcagcaaatt gttcattctt
      841 ctgtcagaca atgtcatatt caactctgtt catattaaac cactgtgaag caa
//
