LOCUS       NM_001110311            1016 bp    mRNA    linear   ROD 02-MAY-2024
DEFINITION  Mus musculus sorting nexin 12 (Snx12), transcript variant 2, mRNA.
ACCESSION   NM_001110311
VERSION     NM_001110311.2
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 1016)
  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 1016)
  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 1016)
  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 1016)
  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 and AL672308.8.
            
            On Mar 31, 2022 this sequence version replaced NM_001110311.1.
            
            Transcript Variant: This variant (2) uses an alternate splice site
            in the 3' coding region, compared to variant 1. It encodes isoform
            2 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 :: AK131838.1, AK169569.1 [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
            506-573             AL672308.8         169282-169349       c
            574-1016            AL672308.8         164699-165141       c
FEATURES             Location/Qualifiers
     source          1..1016
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="X"
                     /map="X 43.72 cM"
     gene            1..1016
                     /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..541
                     /gene="Snx12"
                     /gene_synonym="2610001F05Rik; SDP8"
                     /note="isoform 2 is encoded by transcript variant 2"
                     /codon_start=1
                     /product="sorting nexin-12 isoform 2"
                     /protein_id="NP_001103781.1"
                     /db_xref="CCDS:CCDS53152.1"
                     /db_xref="GeneID:55988"
                     /db_xref="MGI:MGI:1919331"
                     /translation="MSDTAVADTRRLNSKPQDLTDAYGPPSNFLEIDIFNPQTVGVGR
                     ARFTTYEVRMRTNLPIFKLKESCVRRRYSDFEWLKNELERDSKIVVPPLPGKALKRQL
                     PFRGDEGIFEESFIEERRQGLEQFINKIAGHPLAQNERCLHMFLQEEAIDRNYVPGKV
                     LGLHWLLSMR"
     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..573
                     /gene="Snx12"
                     /gene_synonym="2610001F05Rik; SDP8"
                     /inference="alignment:Splign:2.1.0"
     exon            574..1016
                     /gene="Snx12"
                     /gene_synonym="2610001F05Rik; SDP8"
                     /inference="alignment:Splign:2.1.0"
     regulatory      998..1003
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Snx12"
                     /gene_synonym="2610001F05Rik; SDP8"
                     /note="hexamer: AATAAA"
     polyA_site      1016
                     /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 tggattacac tggctgctct ccatgaggta
      541 aacttgcgga gtctataatt aaatagaaaa aagcatgtca gcaagttcac aaggtcaatg
      601 ctacagtaca agatggagtc aggatcacag aatgacatca ctactatcat cttcatctca
      661 tgaagtatga acaaatcagt agagacccta ttgtcaaagt ccagttttga catgactcgg
      721 tctgaagtct gaagtaggtg tgggatcagc agaacatgga cacaggaatc ttcttgatag
      781 ttcagtcaag ttctctcttc tttatttccc cccaaccccc agcttatgtt cctcagcaaa
      841 ctctcaatta cagtgtggct atattctatt tttctttaag tgaatgatta caatgaattt
      901 cctaatacct ttatgtgatt aaatgtttta catattacag gtgaaaaaat tcctaagaac
      961 ccacatacat tcgtatctaa gcaacttgtt atagattaat aaagaaatca agtaca
//
