LOCUS       NM_181540               1440 bp    mRNA    linear   ROD 30-APR-2024
DEFINITION  Mus musculus transmembrane 6 superfamily member 2 (Tm6sf2),
            transcript variant 2, mRNA.
ACCESSION   NM_181540
VERSION     NM_181540.4
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 1440)
  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 1440)
  AUTHORS   Zhu,W., Liang,W., Lu,H., Chang,L., Zhang,J., Chen,Y.E. and Guo,Y.
  TITLE     Myeloid TM6SF2 Deficiency Inhibits Atherosclerosis
  JOURNAL   Cells 11 (18), 2877 (2022)
   PUBMED   36139452
  REMARK    GeneRIF: Myeloid TM6SF2 Deficiency Inhibits Atherosclerosis.
            Publication Status: Online-Only
REFERENCE   3  (bases 1 to 1440)
  AUTHORS   Fan,Y., Wolford,B.N., Lu,H., Liang,W., Sun,J., Zhou,W., Rom,O.,
            Mahajan,A., Surakka,I., Graham,S.E., Liu,Z., Kim,H., Ramdas,S.,
            Fritsche,L.G., Nielsen,J.B., Gabrielsen,M.E., Hveem,K., Yang,D.,
            Song,J., Garcia-Barrio,M.T., Zhang,J., Liu,W., Zhang,K.,
            Willer,C.J. and Chen,Y.E.
  TITLE     Type 2 diabetes sex-specific effects associated with E167K coding
            variant in TM6SF2
  JOURNAL   iScience 24 (11), 103196 (2021)
   PUBMED   34746691
  REMARK    Publication Status: Online-Only
REFERENCE   4  (bases 1 to 1440)
  AUTHORS   Newberry,E.P., Hall,Z., Xie,Y., Molitor,E.A., Bayguinov,P.O.,
            Strout,G.W., Fitzpatrick,J.A.J., Brunt,E.M., Griffin,J.L. and
            Davidson,N.O.
  TITLE     Liver-Specific Deletion of Mouse Tm6sf2 Promotes Steatosis,
            Fibrosis, and Hepatocellular Cancer
  JOURNAL   Hepatology 74 (3), 1203-1219 (2021)
   PUBMED   33638902
  REMARK    GeneRIF: Liver-Specific Deletion of Mouse Tm6sf2 Promotes
            Steatosis, Fibrosis, and Hepatocellular Cancer.
REFERENCE   5  (bases 1 to 1440)
  AUTHORS   Li,B.T., Sun,M., Li,Y.F., Wang,J.Q., Zhou,Z.M., Song,B.L. and
            Luo,J.
  TITLE     Disruption of the ERLIN-TM6SF2-APOB complex destabilizes APOB and
            contributes to non-alcoholic fatty liver disease
  JOURNAL   PLoS Genet 16 (8), e1008955 (2020)
   PUBMED   32776921
  REMARK    Publication Status: Online-Only
REFERENCE   6  (bases 1 to 1440)
  AUTHORS   Smagris,E., Gilyard,S., BasuRay,S., Cohen,J.C. and Hobbs,H.H.
  TITLE     Inactivation of Tm6sf2, a Gene Defective in Fatty Liver Disease,
            Impairs Lipidation but Not Secretion of Very Low Density
            Lipoproteins
  JOURNAL   J Biol Chem 291 (20), 10659-10676 (2016)
   PUBMED   27013658
  REMARK    GeneRIF: Despite TM6SF2 being located in the endoplasmic reticulum
            and Golgi complex, the lipids that accumulate in its absence reside
            in lipid droplets.
REFERENCE   7  (bases 1 to 1440)
  AUTHORS   Fan,Y., Lu,H., Guo,Y., Zhu,T., Garcia-Barrio,M.T., Jiang,Z.,
            Willer,C.J., Zhang,J. and Chen,Y.E.
  TITLE     Hepatic Transmembrane 6 Superfamily Member 2 Regulates Cholesterol
            Metabolism in Mice
  JOURNAL   Gastroenterology 150 (5), 1208-1218 (2016)
   PUBMED   26774178
  REMARK    GeneRIF: Expression of TM6SF2 promoted cholesterol biosynthesis in
            hepatocytes.
REFERENCE   8  (bases 1 to 1440)
  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   9  (bases 1 to 1440)
  AUTHORS   Carim-Todd,L., Escarceller,M., Estivill,X. and Sumoy,L.
  TITLE     Cloning of the novel gene TM6SF1 reveals conservation of clusters
            of paralogous genes between human chromosomes 15q24-->q26 and
            19p13.3-->p12
  JOURNAL   Cytogenet Cell Genet 90 (3-4), 255-260 (2000)
   PUBMED   11124529
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            BB869951.1, AK077126.1 and AC167132.12.
            
            On Jun 21, 2014 this sequence version replaced NM_181540.3.
            
            Transcript Variant: This variant (2) uses an alternate in-frame
            splice junction at the 5' end of an exon compared to variant 1. The
            resulting isoform (2) has the same N- and C-termini but is 2 aa
            shorter compared to isoform 1.
            
            ##Evidence-Data-START##
            Transcript exon combination :: AK077126.1, SRR5189685.141801.1
                                           [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMN00849377, SAMN00849378
                                           [ECO:0000348]
            ##Evidence-Data-END##
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-8                 BB869951.1         2-9
            9-1426              AK077126.1         2-1419
            1427-1440           AC167132.12        140128-140141
FEATURES             Location/Qualifiers
     source          1..1440
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="8"
                     /map="8 34.15 cM"
     gene            1..1440
                     /gene="Tm6sf2"
                     /note="transmembrane 6 superfamily member 2"
                     /db_xref="GeneID:107770"
                     /db_xref="MGI:MGI:1933210"
     exon            1..166
                     /gene="Tm6sf2"
                     /inference="alignment:Splign:2.1.0"
     CDS             72..1202
                     /gene="Tm6sf2"
                     /note="isoform 2 is encoded by transcript variant 2"
                     /codon_start=1
                     /product="transmembrane 6 superfamily member 2 isoform 2"
                     /protein_id="NP_853518.1"
                     /db_xref="CCDS:CCDS22357.1"
                     /db_xref="GeneID:107770"
                     /db_xref="MGI:MGI:1933210"
                     /translation="MDIPPLAGRTVAMSFCALPVSYLLNQVSAFSQPLFVVLTSALIL
                     GLLFLAVYSLSHGEITYDPLYAVFVIFSFTSVVDLVIALQEDGYMMGFMDFYTKEGEP
                     YLRTAHGIFICYWDGTVHYLLYLTMAGAIRKRKRYRNLGLYWLGSFAMSILVFLPGNI
                     LGKYSSEMRPTFFLAILYMLVPCWAGVRIFNQSRAPTSYTPDMEEQKKSLFQRPADLA
                     LIVYLIFAALFTVFRGLVVLDCPTDACFIYIYQYEPYLRDPVAYPKLQMLMYLFYALP
                     FYCLAAYALAFPGCSWLPDWALVFAGAIGQAQFSHMGASMHMRTPFTYRVPEDTWATF
                     FLSNLLLALGPHLLAFRCLWRPAFFLHAALPSSPQDQDKKQQ"
     exon            167..270
                     /gene="Tm6sf2"
                     /inference="alignment:Splign:2.1.0"
     exon            271..368
                     /gene="Tm6sf2"
                     /inference="alignment:Splign:2.1.0"
     exon            369..472
                     /gene="Tm6sf2"
                     /inference="alignment:Splign:2.1.0"
     exon            473..555
                     /gene="Tm6sf2"
                     /inference="alignment:Splign:2.1.0"
     exon            556..680
                     /gene="Tm6sf2"
                     /inference="alignment:Splign:2.1.0"
     exon            681..776
                     /gene="Tm6sf2"
                     /inference="alignment:Splign:2.1.0"
     exon            777..869
                     /gene="Tm6sf2"
                     /inference="alignment:Splign:2.1.0"
     exon            870..989
                     /gene="Tm6sf2"
                     /inference="alignment:Splign:2.1.0"
     exon            990..1440
                     /gene="Tm6sf2"
                     /inference="alignment:Splign:2.1.0"
     regulatory      1407..1412
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Tm6sf2"
                     /note="hexamer: AATAAA"
     polyA_site      1430
                     /gene="Tm6sf2"
                     /note="major polyA site"
ORIGIN      
        1 agagctctga cgcgctgcgg tcacggagcc aagcgtcctg gaggcctcgc cggggtcggg
       61 gtgccgctgc catggacatc ccgcccctag ccggcaggac tgtggcaatg tcattctgcg
      121 ccctgccagt gtcctaccta ctcaatcaag tttcggcgtt ctcacagccc ctgtttgtgg
      181 tgctgacgag tgctctgata ctgggtctgc tcttcctggc agtctatagc ctatctcatg
      241 gggagatcac ctacgaccct ctctatgctg tctttgtgat cttctccttc acctcggtgg
      301 tggaccttgt cattgcactc caagaagatg gctacatgat gggcttcatg gatttctaca
      361 ccaaggaggg tgagccctac ctacgcacag cacatggcat cttcatctgc tactgggatg
      421 gtactgtgca ctacctgctc tatctgacaa tggctggtgc catccgcaaa aggaaaaggt
      481 accggaacct tgggctctac tggctgggat ccttcgccat gagcatcctg gtgtttctcc
      541 cgggaaacat ccttggtaaa tacagttcag agatgaggcc taccttcttc ctcgccatcc
      601 tgtacatgct ggtcccatgc tgggccggtg tgaggatctt caaccagtcc cgggcaccaa
      661 cctcctatac ccctgacatg gaagaacaga agaaaagtct cttccagcgt ccggctgacc
      721 tggcactcat agtatacctc atctttgcag cgctcttcac tgtcttccgg ggtctggtgg
      781 tacttgactg ccccacagat gcctgcttca tctatattta ccaatatgag ccataccttc
      841 gggaccctgt ggcctaccca aagttgcaga tgctgatgta tttgttctat gctctaccat
      901 tctactgcct ggctgcctac gcccttgcct tccctggctg ctcctggctg ccggactggg
      961 ccttggtatt tgctggagcc attggccagg cgcagttctc acacatgggt gcctccatgc
     1021 acatgcgcac acccttcacc taccgcgtgc cagaggacac ctgggctacc ttctttctga
     1081 gcaacctgct attggcactg ggtccccacc tgctggcttt ccgctgcctg tggcggcccg
     1141 ccttcttctt gcatgcagcg ctgccatctt cgccacagga ccaagacaag aagcagcagt
     1201 gagcatgcgc atctctctgc taagtcatct acccgtgcag ccatcattgg ccttcgaggg
     1261 tgggttagcc acacggacat tcggagaaac tgcaatccag gccagaaagg agcataggtg
     1321 ttcttgctgc gtcactgtac ctcaaaagtc acccagactc taatgccccc tcctggaatc
     1381 tagccatcac ctcttcccat acatttaata aaaccttctg atgtctagaa catcaccacc
//
