LOCUS       NM_172120               3212 bp    mRNA    linear   ROD 20-SEP-2024
DEFINITION  Mus musculus VPS41 HOPS complex subunit (Vps41), mRNA.
ACCESSION   NM_172120
VERSION     NM_172120.4
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 3212)
  AUTHORS   Jain,S., Yee,A.G., Maas,J., Gierok,S., Xu,H., Stansil,J.,
            Eriksen,J., Nelson,A.B., Silm,K., Ford,C.P. and Edwards,R.H.
  TITLE     Adaptor protein-3 produces synaptic vesicles that release phasic
            dopamine
  JOURNAL   Proc Natl Acad Sci U S A 120 (42), e2309843120 (2023)
   PUBMED   37812725
REFERENCE   2  (bases 1 to 3212)
  AUTHORS   Wang,T., Yan,L., Wang,L., Sun,J., Qu,H., Ma,Y., Song,R., Tong,X.,
            Zhu,J., Yuan,Y., Gu,J., Bian,J., Liu,Z. and Zou,H.
  TITLE     VPS41-mediated incomplete autophagy aggravates cadmium-induced
            apoptosis in mouse hepatocytes
  JOURNAL   J Hazard Mater 459, 132243 (2023)
   PUBMED   37562348
  REMARK    GeneRIF: VPS41-mediated incomplete autophagy aggravates
            cadmium-induced apoptosis in mouse hepatocytes.
REFERENCE   3  (bases 1 to 3212)
  AUTHORS   Burns,C.H., Yau,B., Rodriguez,A., Triplett,J., Maslar,D., An,Y.S.,
            van der Welle,R.E.N., Kossina,R.G., Fisher,M.R., Strout,G.W.,
            Bayguinov,P.O., Veenendaal,T., Chitayat,D., Fitzpatrick,J.A.J.,
            Klumperman,J., Kebede,M.A. and Asensio,C.S.
  TITLE     Pancreatic beta-Cell-Specific Deletion of VPS41 Causes Diabetes Due
            to Defects in Insulin Secretion
  JOURNAL   Diabetes 70 (2), 436-448 (2021)
   PUBMED   33168621
  REMARK    GeneRIF: Pancreatic beta-Cell-Specific Deletion of VPS41 Causes
            Diabetes Due to Defects in Insulin Secretion.
REFERENCE   4  (bases 1 to 3212)
  AUTHORS   Lorincz,P., Kenez,L.A., Toth,S., Kiss,V., Varga,A., Csizmadia,T.,
            Simon-Vecsei,Z. and Juhasz,G.
  TITLE     Vps8 overexpression inhibits HOPS-dependent trafficking routes by
            outcompeting Vps41/Lt
  JOURNAL   Elife 8, e45631 (2019)
   PUBMED   31194677
  REMARK    Publication Status: Online-Only
REFERENCE   5  (bases 1 to 3212)
  AUTHORS   Barry,A.O., Boucherit,N., Mottola,G., Vadovic,P., Trouplin,V.,
            Soubeyran,P., Capo,C., Bonatti,S., Nebreda,A., Toman,R.,
            Lemichez,E., Mege,J.L. and Ghigo,E.
  TITLE     Impaired stimulation of p38alpha-MAPK/Vps41-HOPS by LPS from
            pathogenic Coxiella burnetii prevents trafficking to microbicidal
            phagolysosomes
  JOURNAL   Cell Host Microbe 12 (6), 751-763 (2012)
   PUBMED   23245320
  REMARK    GeneRIF: Lack of Coxiella burnetii targeting to degradative
            compartments involves an antagonistic engagement of TLR4 by
            lipopolysaccharides, lack of p38alpha-MAPK-driven phosphorylation,
            and block in recruitment of the Vps41 to
            lipopolysaccharide-containing vesicles.
REFERENCE   6  (bases 1 to 3212)
  AUTHORS   Aoyama,M., Agari,K., Sun-Wada,G.H., Futai,M. and Wada,Y.
  TITLE     Simple and straightforward construction of a mouse gene targeting
            vector using in vitro transposition reactions
  JOURNAL   Nucleic Acids Res 33 (5), e52 (2005)
   PUBMED   15784610
  REMARK    Publication Status: Online-Only
REFERENCE   7  (bases 1 to 3212)
  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
REFERENCE   8  (bases 1 to 3212)
  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
REFERENCE   9  (bases 1 to 3212)
  AUTHORS   Loebel,D.A., O'Rourke,M.P., Steiner,K.A., Banyer,J. and Tam,P.P.
  TITLE     Isolation of differentially expressed genes from wild-type and
            Twist mutant mouse limb buds
  JOURNAL   Genesis 33 (3), 103-113 (2002)
   PUBMED   12124942
REFERENCE   10 (bases 1 to 3212)
  AUTHORS   Gwynn,B., Ciciotte,S.L., Hunter,S.J., Washburn,L.L., Smith,R.S.,
            Andersen,S.G., Swank,R.T., Dell'Angelica,E.C., Bonifacino,J.S.,
            Eicher,E.M. and Peters,L.L.
  TITLE     Defects in the cappuccino (cno) gene on mouse chromosome 5 and
            human 4p cause Hermansky-Pudlak syndrome by an AP-3-independent
            mechanism
  JOURNAL   Blood 96 (13), 4227-4235 (2000)
   PUBMED   11110696
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            AB028843.1 and AI851542.1.
            
            On Dec 29, 2009 this sequence version replaced NM_172120.3.
            
            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 :: AB028843.1, AK164177.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMN00849375, SAMN00849380
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            RefSeq Select criteria :: based on conservation, expression,
                                      longest protein
            ##RefSeq-Attributes-END##
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-3187              AB028843.1         1-3187
            3188-3212           AI851542.1         1-25                c
FEATURES             Location/Qualifiers
     source          1..3212
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="13"
                     /map="13 6.75 cM"
     gene            1..3212
                     /gene="Vps41"
                     /gene_synonym="mVam2; Vam2"
                     /note="VPS41 HOPS complex subunit"
                     /db_xref="GeneID:218035"
                     /db_xref="MGI:MGI:1929215"
     exon            1..45
                     /gene="Vps41"
                     /gene_synonym="mVam2; Vam2"
                     /inference="alignment:Splign:2.1.0"
     CDS             25..2586
                     /gene="Vps41"
                     /gene_synonym="mVam2; Vam2"
                     /note="VAM2 homolog; vacuolar protein sorting 41"
                     /codon_start=1
                     /product="vacuolar protein sorting-associated protein 41
                     homolog"
                     /protein_id="NP_742118.3"
                     /db_xref="CCDS:CCDS26257.1"
                     /db_xref="GeneID:218035"
                     /db_xref="MGI:MGI:1929215"
                     /translation="MAEAEEQETESLEESTDESEEESEEEPKLKYERLSNGVTEILQK
                     DAASCMTVHDKFLALGTHYGKVYLLDVQGNITQKFDVSPVKINQISLDDSGEHMGVCS
                     EDGKLQVFGLYSGEEFHETFDCPIKIIAVHPQFVRSSCKQFVTGGKKLLLFERTWMNR
                     WKSSVLHEGEGNIRSVKWRGHLIAWANNMGVKVFDITSKQRISNVPRDDISLRPDMYP
                     CSLCWKDNVTLIIGWGTSIKICSVKERHASEMRDLPSRYVEIVSQFETEFYISGLAPL
                     CDQLVVLSYVKEVSEKTEREYCARPRLDIIQPLPETCEEISSDALTVRGFQENECRDY
                     HLEYSEGESLFYVVSPRDVVVAKERDQDDHIDWLLEKKKYEEALMAAEISQRNIKRHK
                     ILDIGLAYVNHLVERGEYDMAARKCQKILGKNASLWEYEVYKFKEIGQLKAISPYLPR
                     GDPVLKPLIYEMILHEFLESDYEGFATLIREWPGDLYNNSVIVQAVRDHLKKDSQNKT
                     LLKTLAELYTYDKNYGNALEIYLTLRHKDVFQLIHKHNLFSSIKDKIVLLMDFDSEKA
                     VDMLLDNEDKISIKKVVEELEDRPELQHVYLHKLFKRDHHKGQRYHEKQISLYAEYDR
                     PNLLPFLRDSTHCPLEKALEICQQRNFVEETVYLLSRMGNSRSALKMIMEELHDVDKA
                     IEFAKEQDDGELWEDLILYSIDKPPFITGLLNNIGTHVDPILLIHRIKEGMEIPNLRD
                     SLVKILQDYNLQILLREGCKKILVADSLSLLKKMHRTQMKGVLVDEENICESCLSPIL
                     PTDAAKPFSVVVFHCRHMFHKECLPMPSMNAPAQYCNICSAKNRGPGSAILEMKK"
     exon            46..84
                     /gene="Vps41"
                     /gene_synonym="mVam2; Vam2"
                     /inference="alignment:Splign:2.1.0"
     exon            85..189
                     /gene="Vps41"
                     /gene_synonym="mVam2; Vam2"
                     /inference="alignment:Splign:2.1.0"
     exon            190..267
                     /gene="Vps41"
                     /gene_synonym="mVam2; Vam2"
                     /inference="alignment:Splign:2.1.0"
     exon            268..342
                     /gene="Vps41"
                     /gene_synonym="mVam2; Vam2"
                     /inference="alignment:Splign:2.1.0"
     exon            343..405
                     /gene="Vps41"
                     /gene_synonym="mVam2; Vam2"
                     /inference="alignment:Splign:2.1.0"
     exon            406..471
                     /gene="Vps41"
                     /gene_synonym="mVam2; Vam2"
                     /inference="alignment:Splign:2.1.0"
     exon            472..591
                     /gene="Vps41"
                     /gene_synonym="mVam2; Vam2"
                     /inference="alignment:Splign:2.1.0"
     exon            592..738
                     /gene="Vps41"
                     /gene_synonym="mVam2; Vam2"
                     /inference="alignment:Splign:2.1.0"
     exon            739..805
                     /gene="Vps41"
                     /gene_synonym="mVam2; Vam2"
                     /inference="alignment:Splign:2.1.0"
     exon            806..903
                     /gene="Vps41"
                     /gene_synonym="mVam2; Vam2"
                     /inference="alignment:Splign:2.1.0"
     exon            904..1033
                     /gene="Vps41"
                     /gene_synonym="mVam2; Vam2"
                     /inference="alignment:Splign:2.1.0"
     exon            1034..1149
                     /gene="Vps41"
                     /gene_synonym="mVam2; Vam2"
                     /inference="alignment:Splign:2.1.0"
     exon            1150..1206
                     /gene="Vps41"
                     /gene_synonym="mVam2; Vam2"
                     /inference="alignment:Splign:2.1.0"
     exon            1207..1268
                     /gene="Vps41"
                     /gene_synonym="mVam2; Vam2"
                     /inference="alignment:Splign:2.1.0"
     exon            1269..1350
                     /gene="Vps41"
                     /gene_synonym="mVam2; Vam2"
                     /inference="alignment:Splign:2.1.0"
     exon            1351..1443
                     /gene="Vps41"
                     /gene_synonym="mVam2; Vam2"
                     /inference="alignment:Splign:2.1.0"
     exon            1444..1571
                     /gene="Vps41"
                     /gene_synonym="mVam2; Vam2"
                     /inference="alignment:Splign:2.1.0"
     exon            1572..1716
                     /gene="Vps41"
                     /gene_synonym="mVam2; Vam2"
                     /inference="alignment:Splign:2.1.0"
     exon            1717..1758
                     /gene="Vps41"
                     /gene_synonym="mVam2; Vam2"
                     /inference="alignment:Splign:2.1.0"
     exon            1759..1809
                     /gene="Vps41"
                     /gene_synonym="mVam2; Vam2"
                     /inference="alignment:Splign:2.1.0"
     exon            1810..1947
                     /gene="Vps41"
                     /gene_synonym="mVam2; Vam2"
                     /inference="alignment:Splign:2.1.0"
     exon            1948..2002
                     /gene="Vps41"
                     /gene_synonym="mVam2; Vam2"
                     /inference="alignment:Splign:2.1.0"
     exon            2003..2143
                     /gene="Vps41"
                     /gene_synonym="mVam2; Vam2"
                     /inference="alignment:Splign:2.1.0"
     exon            2144..2280
                     /gene="Vps41"
                     /gene_synonym="mVam2; Vam2"
                     /inference="alignment:Splign:2.1.0"
     exon            2281..2380
                     /gene="Vps41"
                     /gene_synonym="mVam2; Vam2"
                     /inference="alignment:Splign:2.1.0"
     exon            2381..2425
                     /gene="Vps41"
                     /gene_synonym="mVam2; Vam2"
                     /inference="alignment:Splign:2.1.0"
     exon            2426..2505
                     /gene="Vps41"
                     /gene_synonym="mVam2; Vam2"
                     /inference="alignment:Splign:2.1.0"
     exon            2506..3197
                     /gene="Vps41"
                     /gene_synonym="mVam2; Vam2"
                     /inference="alignment:Splign:2.1.0"
     regulatory      3171..3176
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Vps41"
                     /gene_synonym="mVam2; Vam2"
                     /note="hexamer: AATAAA"
     polyA_site      3190
                     /gene="Vps41"
                     /gene_synonym="mVam2; Vam2"
                     /note="major polyA site"
ORIGIN      
        1 gtcacatgac tctcaggctg cgctatggcg gaagcagagg agcaggaaac cgagtctctt
       61 gaagaatcta cggatgagtc agaggaagaa agtgaagagg aacccaaact gaagtatgaa
      121 aggctttcca atggggtgac agagattctt cagaaggatg cagcaagctg tatgacggtc
      181 catgacaagt ttttggcact gggaacacat tatggcaagg tttatttact tgatgtccag
      241 ggaaacatca ctcagaagtt tgatgtaagt cctgtgaaga taaaccaaat tagcttggat
      301 gacagtggag aacacatggg agtgtgttca gaggatggca agctgcaggt ctttgggctg
      361 tattctggag aagaatttca cgagactttt gactgtccca ttaaaatcat tgctgtgcac
      421 ccacagttcg tgagatccag ttgtaagcag tttgtgactg gcgggaaaaa gctgctgctg
      481 tttgaacgga cctggatgaa cagatggaag tcttctgtgc tacacgaagg ggaaggaaac
      541 ataaggagtg tgaagtggag aggccatctg attgcttggg ccaacaatat gggtgtgaag
      601 gtttttgaca tcacctcaaa gcaaagaatc agcaatgtgc cccgagatga cataagtctt
      661 cgcccagaca tgtacccctg cagcctctgc tggaaggaca atgtgacact cattattggc
      721 tggggaactt ccatcaagat atgctcagtg aaggaacgcc acgccagtga gatgagggat
      781 ctgccaagcc gatatgttga gatagtgtct cagtttgaaa ctgaattcta cattagtgga
      841 cttgcacctc tctgtgatca gcttgttgta ctttcctacg taaaggaggt ttcagaaaaa
      901 acggaaagag aatactgtgc aagacctaga ctggacatca tccagccact tccggagact
      961 tgtgaagaga tctcctccga tgctttgaca gtcagaggct ttcaggagaa tgaatgtagg
     1021 gattaccact tagaatactc cgagggggaa tcactcttct atgtcgtgag tccaagagat
     1081 gtcgtcgtag ccaaggaacg agaccaggat gatcacatcg attggctcct tgagaagaag
     1141 aaatatgaag aagctttgat ggctgctgaa attagccaaa ggaacattaa acgacataag
     1201 attctggata ttgggttggc atatgtaaac cacctggtgg agagaggaga gtacgacatg
     1261 gctgcaagaa aatgccagaa aattcttggg aaaaatgcat ccctctggga atacgaagtt
     1321 tacaaattta aagaaattgg gcagcttaaa gcaattagtc cctatttacc tcgaggggac
     1381 ccagttctga aaccactcat ctatgaaatg attttgcacg aatttctgga aagtgactat
     1441 gagggctttg ccacattgat cagagagtgg cctggagatc tatataacaa ttccgtgata
     1501 gttcaggcag ttcgagacca cctgaagaag gacagtcaga acaaaacgtt attgaaaaca
     1561 ctggcagaat tgtacaccta tgacaaaaat tatggcaatg ctctggaaat atacttaacg
     1621 ttaagacata aagatgtttt ccaactgata cacaagcata atcttttcag ctccatcaag
     1681 gataaaattg tgttattaat ggattttgat tcagagaaag ctgttgacat gcttttggac
     1741 aatgaagata aaatttcaat taaaaaagtg gtagaagaat tagaagacag accagaactg
     1801 cagcatgtgt atttgcacaa gctcttcaag agagaccatc ataagggaca gcgctaccat
     1861 gaaaagcaga tcagtctgta tgccgagtat gaccgaccaa acctgcttcc ctttctccga
     1921 gacagtaccc attgcccact tgaaaaggca cttgagatct gtcaacaaag aaactttgta
     1981 gaagagacag tttaccttct gagccgaatg ggaaacagta gaagtgccct caagatgatt
     2041 atggaggaat tgcatgatgt tgataaagca attgagtttg ccaaggaaca agatgatgga
     2101 gagctctggg aagatctgat tctatactcc atcgacaaac caccatttat cactggcttg
     2161 ttgaacaaca ttggcacaca tgtggacccg attctactta tccaccgaat taaggaagga
     2221 atggagattc ccaatttgag agattccttg gttaaaattc tgcaagatta taacttgcag
     2281 attctgcttc gagaaggctg caagaaaatc ctcgtagctg actcattgtc gttgctgaaa
     2341 aaaatgcacc gaacccaaat gaaaggcgtt ctggttgatg aagagaatat ctgtgaatca
     2401 tgcctttctc ccatcctccc aacagatgca gcgaagccct tcagcgtggt ggtcttccac
     2461 tgccggcaca tgttccacaa ggagtgcctg cctatgccga gcatgaatgc tcctgcacaa
     2521 tactgcaaca tctgtagtgc taagaaccgt gggcctggaa gtgccatcct ggagatgaag
     2581 aagtaggcct gcctgcctgc ccaccctttg ccactctcca ctgagtgact gctggaccac
     2641 agcagctgtg tcaacgccag tgctgttgag tgacgtgttc agggctcctc ggagctcccc
     2701 gtcagttgtt ttctccagac cttccttcca gaagctgctc cttgtcaccg atggagaagt
     2761 cgaagctctt cccatgccat gaaatattgc attgctaatc agtatttcat gatttgttta
     2821 tttggcttat ttagttagca aaagagttca aagtgacttc gttataccct agttacaccc
     2881 accaggcatg aactgcacta ctgagaacac tgccagctac agtcggccaa aagttctgct
     2941 ggtaacagtt ctggcatgcc tggctacact gtttgtcatc agctgtgggt agcctcctaa
     3001 agcgcattta gaggtaaaaa ttaaaattaa aggtaaaatg ctgagaactg acactccttc
     3061 agtgacatgt gggaagacca ttagctgggg tactatagcc ttatgtttgc tacctacgcg
     3121 ctgactagct cagttatctg ccccatcagg tcatcaatat ttgttgaatg aataaatgtt
     3181 gcccttctca ttgtgaaaaa aaaaaaaaaa aa
//
