LOCUS       NM_172269               4054 bp    mRNA    linear   ROD 01-JUN-2024
DEFINITION  Mus musculus VPS18 CORVET/HOPS core subunit (Vps18), mRNA.
ACCESSION   NM_172269
VERSION     NM_172269.3
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 4054)
  AUTHORS   Lohanadan,K., Molt,S., Dierck,F., van der Ven,P.F.M., Frey,N.,
            Hohfeld,J. and Furst,D.O.
  TITLE     Isoform-specific functions of synaptopodin-2 variants in
            cytoskeleton stabilization and autophagy regulation in muscle under
            mechanical stress
  JOURNAL   Exp Cell Res 408 (2), 112865 (2021)
   PUBMED   34637763
  REMARK    GeneRIF: Isoform-specific functions of synaptopodin-2 variants in
            cytoskeleton stabilization and autophagy regulation in muscle under
            mechanical stress.
REFERENCE   2  (bases 1 to 4054)
  AUTHORS   Ferder,I.C., Fung,L., Ohguchi,Y., Zhang,X., Lassen,K.G., Capen,D.,
            Brown,D., Xavier,R.J. and Wang,N.
  TITLE     Meiotic gatekeeper STRA8 suppresses autophagy by repressing Nr1d1
            expression during spermatogenesis in mice
  JOURNAL   PLoS Genet 15 (5), e1008084 (2019)
   PUBMED   31059511
  REMARK    Publication Status: Online-Only
REFERENCE   3  (bases 1 to 4054)
  AUTHORS   Laguna,A., Schintu,N., Nobre,A., Alvarsson,A., Volakakis,N.,
            Jacobsen,J.K., Gomez-Galan,M., Sopova,E., Joodmardi,E.,
            Yoshitake,T., Deng,Q., Kehr,J., Ericson,J., Svenningsson,P.,
            Shupliakov,O. and Perlmann,T.
  TITLE     Dopaminergic control of autophagic-lysosomal function implicates
            Lmx1b in Parkinson's disease
  JOURNAL   Nat Neurosci 18 (6), 826-835 (2015)
   PUBMED   25915474
REFERENCE   4  (bases 1 to 4054)
  AUTHORS   Perini,E.D., Schaefer,R., Stoter,M., Kalaidzidis,Y. and Zerial,M.
  TITLE     Mammalian CORVET is required for fusion and conversion of distinct
            early endosome subpopulations
  JOURNAL   Traffic 15 (12), 1366-1389 (2014)
   PUBMED   25266290
REFERENCE   5  (bases 1 to 4054)
  AUTHORS   Pirooz,S.D., He,S., Zhang,T., Zhang,X., Zhao,Z., Oh,S.,
            O'Connell,D., Khalilzadeh,P., Amini-Bavil-Olyaee,S., Farzan,M. and
            Liang,C.
  TITLE     UVRAG is required for virus entry through combinatorial interaction
            with the class C-Vps complex and SNAREs
  JOURNAL   Proc Natl Acad Sci U S A 111 (7), 2716-2721 (2014)
   PUBMED   24550300
REFERENCE   6  (bases 1 to 4054)
  AUTHORS   Peng,C., Yan,S., Ye,J., Shen,L., Xu,T. and Tao,W.
  TITLE     Vps18 deficiency inhibits dendritogenesis in Purkinje cells by
            blocking the lysosomal degradation of Lysyl Oxidase
  JOURNAL   Biochem Biophys Res Commun 423 (4), 715-720 (2012)
   PUBMED   22699122
  REMARK    GeneRIF: Vps18 deficiency severely blocks the dendrite development
            of Pukinje cells but not cerebral cortical neurons.
REFERENCE   7  (bases 1 to 4054)
  AUTHORS   Zlatic,S.A., Tornieri,K., L'Hernault,S.W. and Faundez,V.
  TITLE     Clathrin-dependent mechanisms modulate the subcellular distribution
            of class C Vps/HOPS tether subunits in polarized and nonpolarized
            cells
  JOURNAL   Mol Biol Cell 22 (10), 1699-1715 (2011)
   PUBMED   21411634
REFERENCE   8  (bases 1 to 4054)
  AUTHORS   Zhu,G.D., Salazar,G., Zlatic,S.A., Fiza,B., Doucette,M.M.,
            Heilman,C.J., Levey,A.I., Faundez,V. and L'hernault,S.W.
  TITLE     SPE-39 family proteins interact with the HOPS complex and function
            in lysosomal delivery
  JOURNAL   Mol Biol Cell 20 (4), 1223-1240 (2009)
   PUBMED   19109425
REFERENCE   9  (bases 1 to 4054)
  AUTHORS   Okazaki,N., F-Kikuno,R., Ohara,R., Inamoto,S., Koseki,H.,
            Hiraoka,S., Saga,Y., Seino,S., Nishimura,M., Kaisho,T., Hoshino,K.,
            Kitamura,H., Nagase,T., Ohara,O. and Koga,H.
  TITLE     Prediction of the coding sequences of mouse homologues of KIAA
            gene: IV. The complete nucleotide sequences of 500 mouse
            KIAA-homologous cDNAs identified by screening of terminal sequences
            of cDNA clones randomly sampled from size-fractionated libraries
  JOURNAL   DNA Res 11 (3), 205-218 (2004)
   PUBMED   15368895
REFERENCE   10 (bases 1 to 4054)
  AUTHORS   Richardson,S.C., Winistorfer,S.C., Poupon,V., Luzio,J.P. and
            Piper,R.C.
  TITLE     Mammalian late vacuole protein sorting orthologues participate in
            early endosomal fusion and interact with the cytoskeleton
  JOURNAL   Mol Biol Cell 15 (3), 1197-1210 (2004)
   PUBMED   14668490
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            AL929318.11, AK036915.1 and AK033333.1.
            
            On Jul 24, 2009 this sequence version replaced NM_172269.2.
            
            Publication Note:  This RefSeq record includes a subset of the
            publications that are available for this gene. Please see the Gene
            record to access additional publications.
            
            ##Evidence-Data-START##
            Transcript exon combination :: AK033333.1, AK036915.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMN00849374, SAMN00849375
                                           [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
            1-15                AL929318.11        76558-76572
            16-3424             AK036915.1         1-3409
            3425-4054           AK033333.1         3410-4039
FEATURES             Location/Qualifiers
     source          1..4054
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="2"
                     /map="2 59.97 cM"
     gene            1..4054
                     /gene="Vps18"
                     /gene_synonym="9930024E13Rik"
                     /note="VPS18 CORVET/HOPS core subunit"
                     /db_xref="GeneID:228545"
                     /db_xref="MGI:MGI:2443626"
     exon            1..389
                     /gene="Vps18"
                     /gene_synonym="9930024E13Rik"
                     /inference="alignment:Splign:2.1.0"
     CDS             299..3220
                     /gene="Vps18"
                     /gene_synonym="9930024E13Rik"
                     /note="vacuolar protein sorting 18"
                     /codon_start=1
                     /product="vacuolar protein sorting-associated protein 18
                     homolog"
                     /protein_id="NP_758473.3"
                     /db_xref="CCDS:CCDS16599.1"
                     /db_xref="GeneID:228545"
                     /db_xref="MGI:MGI:2443626"
                     /translation="MASILDEYEDSLSRSAVLQTGCPSVGIPHSGYVSAHLEKEVPIF
                     TKQRVDFTPSERITSLVVSCNQLCMSLGKDTLLRIDLGKASEPNRVELGRKDDAKVHK
                     MFLDHTGSHLLVALSSTEVLYMNRNGQKARPLARWKGQLVESVGWNKAMGNESSTGPI
                     LVGTAQGQIFEAELSASEGGLFGPAPDLYFRPLYVLNEEGGPAPVCSLEAERGPDGRG
                     FVIATTRQRLFQFIGRAVEDTEAQGFAGLFAAYTDHPPPFREFPSNLGYSELAFYTPK
                     LRSAPRAFAWMMGDGVLYGSLDCGRPDSLLSEERVWEYPAGVGPGANPPLAIVLTQFH
                     FLLLLADRVEAVCTLTGQVVLRDHFLEKFGPLRHMVKDSSTGHLWAYTERAVFRYHVQ
                     REARDVWRTYLDMNRFDLAKEYCRERPDCLDTVLAREADFCFRQHRYLESARCYALTQ
                     SYFEEIALKFLEARQEEALAEFLQRKLAGLKPTERTQATLLTTWLTELYLSRLGALQG
                     DPDALTLYRDTRECFRTFLSSPRHKEWLFASRASIHELLASHGDTEHMVYFAVIMQDY
                     ERVVAYHCQHEAYEEALAVLARHRDPQLFYKFSPILIRHIPRQLVDAWIEMGSRLDAR
                     QLIPALVNYSQGGEAQQVSQAIRYMEFCVNVLGETEQAIHNYLLSLYARGQPASLLAY
                     LEQAGASPHRVHYDLKYALRLCAEHGHHRACVHVYKVLELYEEAVDLALQVDVDLAKQ
                     CADLPEEDEELRKKLWLKIARHVVQEEEDVQTAMACLASCPLLKIEDVLPFFPDFVTI
                     DHFKEAICSSLKAYNHHIQELQREMEEATASAQRIRRDLQELRGRYGTVEPQDKCSTC
                     DFPLLNRPFYLFLCGHMFHADCLLQAVRPGLPAYKQARLEELQRKLGAAPPPTKGSVK
                     AKEAEAGAAAVGPSREQLKADLDELVAAECVYCGELMIRSIDRPFIDPQRYEEEHLSW
                     L"
     exon            390..531
                     /gene="Vps18"
                     /gene_synonym="9930024E13Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            532..623
                     /gene="Vps18"
                     /gene_synonym="9930024E13Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            624..2494
                     /gene="Vps18"
                     /gene_synonym="9930024E13Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            2495..4054
                     /gene="Vps18"
                     /gene_synonym="9930024E13Rik"
                     /inference="alignment:Splign:2.1.0"
     regulatory      3725..3730
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Vps18"
                     /gene_synonym="9930024E13Rik"
                     /note="hexamer: ATTAAA"
     polyA_site      3746
                     /gene="Vps18"
                     /gene_synonym="9930024E13Rik"
                     /note="major polyA site"
     regulatory      3934..3939
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Vps18"
                     /gene_synonym="9930024E13Rik"
                     /note="hexamer: AATAAA"
     regulatory      3940..3945
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Vps18"
                     /gene_synonym="9930024E13Rik"
                     /note="hexamer: AATAAA"
     polyA_site      3966
                     /gene="Vps18"
                     /gene_synonym="9930024E13Rik"
     polyA_site      3969
                     /gene="Vps18"
                     /gene_synonym="9930024E13Rik"
                     /note="major polyA site"
ORIGIN      
        1 gcgtcacggg ggcgggagtc agctgagctg cctgggcgag gttgtgatta cctgggatct
       61 gctaagggga gcctataatc tcttgggact ggagctgggg tgcaaagctg cgccatggac
      121 tagttggggc tcctcgatcg tctcgtcctt cacagagaaa gcgaaaaggg ccccagaatt
      181 tttaaaaggt tctcaggatc tgtcagacgc tggggaagca caacttgcaa atccaggacg
      241 accggggtcc cagttgtgac ccccagcccc cagatcagag atccagaact tgattgccat
      301 ggcgtccatc ctggatgagt acgaggactc attgtcccgc tcggccgtct tgcagactgg
      361 ttgccctagc gtgggcatcc cccattctgg gtatgtaagt gcccacctgg agaaggaggt
      421 gcccatcttc accaagcagc gggttgactt caccccctcg gagcggatca ctagcctcgt
      481 ggtctcctgc aatcagctct gcatgagcct gggcaaggat acactgctcc gcattgactt
      541 gggcaaggca agtgagccca accgtgtgga actggggcgc aaggacgacg ccaaagtcca
      601 caagatgttc ctggaccata ctggctctca tctgctggtt gcgctgagta gcaccgaggt
      661 cctttacatg aaccgcaatg gacagaaggc ccggcccctg gctcgctgga agggacagct
      721 ggtggagagt gtgggatgga acaaggccat gggcaacgag agcagcaccg gccccatcct
      781 ggtcggcaca gctcaaggac agatctttga agcagagctc tcagctagcg agggtggcct
      841 ctttggccct gccccagatc tctacttccg tccactgtat gtgttaaatg aagaaggggg
      901 tccagcccct gtgtgctccc tcgaggctga gcgtggcccc gatggccgag gctttgtcat
      961 tgccaccact cggcagcgcc tcttccagtt cataggccga gctgtggaag atactgaagc
     1021 ccagggcttc gcaggactct ttgctgccta tacagaccac ccgcccccat tccgtgagtt
     1081 tcctagcaat ttggggtata gtgagttggc tttctatacc cctaagttac gctcggcacc
     1141 tcgcgccttt gcctggatga tgggagatgg agtgctgtat ggctcactgg actgcgggcg
     1201 tcctgactcg ctgctgagtg aggagcgagt gtgggaatac ccagcggggg ttggtcctgg
     1261 ggccaatcca cccttagcca tcgtcctgac ccagttccat ttcctactgc tgctggccga
     1321 ccgggtggag gctgtgtgca cgctaacagg gcaggtggtg ctacgggatc acttcctgga
     1381 gaagtttgga ccactgaggc acatggtgaa ggactcatcc acaggccacc tatgggccta
     1441 cactgagcgt gcggtcttcc gctaccatgt gcaacgtgag gcacgggatg tctggcgcac
     1501 ctacttggac atgaaccgct ttgacctggc caaagagtat tgtagagagc ggcctgattg
     1561 cctggacacg gtcctggccc gagaggctga tttctgtttt cgtcagcatc gctacctgga
     1621 gagcgcccgc tgctacgcgc tgacccagag ctattttgag gagattgccc tcaagttctt
     1681 ggaggcccgg caagaggagg cgctggccga gtttcttcag cggaaactgg ccggcttgaa
     1741 gccgacggag cgtacccagg ccacactgct gaccacttgg ctgacagagc tctacctgag
     1801 ccgcctgggt gctctgcagg gtgacccaga tgctctgact ctctaccggg acacacggga
     1861 gtgtttccgt acttttctca gtagccctcg gcacaaagag tggctctttg ccagccgggc
     1921 ctctatccac gagctgctcg ccagtcacgg agacacagag cacatggtgt attttgcagt
     1981 gatcatgcag gactatgaac gggtggtcgc ataccactgc cagcatgagg cttacgagga
     2041 ggccctggct gtgcttgccc gccaccggga cccccagctc ttctacaaat tctcccccat
     2101 tctcatccgc cacatccccc gccagctcgt agacgcctgg attgagatgg gcagccggct
     2161 ggatgctcgg cagctcatcc ctgccctggt gaactacagc cagggcggtg aggcccagca
     2221 ggtgagccag gccatccgct acatggaatt ctgcgtgaat gtgctcggtg agacggagca
     2281 ggccattcac aactacctgc tgtccctgta tgcccgtggc cagccagcct cacttctggc
     2341 atacctggaa caagctgggg ccagcccgca ccgtgtacat tatgatctca aatatgcact
     2401 tcgactttgt gctgagcacg gccaccaccg cgcctgcgtc catgtctata aggtgttgga
     2461 gctatatgag gaggctgtgg acctggccct gcaggtggat gtggacctgg ccaagcagtg
     2521 tgcagacttg ccggaggagg atgaggaact tcgcaagaaa ctatggctca agatcgcccg
     2581 gcacgtggtg caggaggaag aagacgtcca gacagccatg gcctgcttgg ccagctgccc
     2641 cttgctcaag atcgaggatg tgctgccctt cttccctgac tttgtcacca tcgaccactt
     2701 caaggaggca atctgtagtt ccctgaaggc ctacaaccac cacatccagg agctgcagcg
     2761 cgagatggaa gaagccacag ccagtgccca gcgcatccga cgagacttgc aggagctccg
     2821 aggccgctat ggcaccgtgg agccccagga caaatgctcc acctgtgact ttcctttgct
     2881 caaccgaccc ttttacctgt ttctctgtgg ccacatgttt cacgctgact gtctcctaca
     2941 ggctgtgcgg cccggcctcc ctgcctacaa gcaggccaga cttgaggaac tgcagcgcaa
     3001 gcttggggcg gcgcctcctc cgaccaaagg ctccgtgaag gccaaggagg cagaagctgg
     3061 ggctgcagcg gtggggccca gtcgggagca gctcaaggct gacctggatg agctggtggc
     3121 tgctgagtgt gtgtactgtg gggagctgat gattcggtct atcgaccggc ccttcattga
     3181 tccgcagcgc tatgaggagg agcacctcag ctggctatag gaagttcccc cgcgtgggtg
     3241 gacagacatg gatccagctg ccagaccctc ctgcgaaagc caggccctgg ttggtgttcg
     3301 gtccttgagc ttgccgggtc tgcgattgtg agggggttgc agccaagctt cagccgggag
     3361 gttttcaggt gcgaacgccg agctgtgctt cagacctgtc ttagagctgc ccgtcccagg
     3421 cagcccgagc tggtgagatc agccgtgatc cttttaacca ctacatctaa cagttcctct
     3481 gttctcgtca gcatgttcac ctggactgag tggcccgctg tccttccttc ctccgtcctt
     3541 ccacagcctc tggacctcca gctcgccctc ttctgcctca actaggtgac ccaggagcaa
     3601 gcaggcagac cctaggcact tgtggggaga gtgggcatgt ggagatgcta atgtgacctg
     3661 gggctccagt gtcgggtgcc ctgaggctga gggcacacct gggacaaggg gaaataggga
     3721 gagtattaaa tcacgctaca atggtggccc tggacttgat ggctttgtgt tgatgctgaa
     3781 gctaacagga tatgatccca agaaaggatg gaatgccaca agaaggctgc ctgcaccaag
     3841 tgtggaatag aacaggtcag gtcacggcca gcctagtcga cataataagt tctaggccag
     3901 caaaggctag aaaaaattaa attaaattaa aaaaataaaa ataaaaagaa gaagtccaga
     3961 gtcctgcaag cctttgagcc ttggcgtagg tccttcactg ggggtgaggc aggttttgct
     4021 tgtttccttc tctgactata aatgtttaga gatt
//
