LOCUS       NM_139061               4569 bp    mRNA    linear   ROD 30-APR-2024
DEFINITION  Mus musculus VPS54 GARP complex subunit (Vps54), transcript variant
            1, mRNA.
ACCESSION   NM_139061
VERSION     NM_139061.5
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 4569)
  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 4569)
  AUTHORS   Junghans,M., John,F., Cihankaya,H., Schliebs,D., Winklhofer,K.F.,
            Bader,V., Matschke,J., Theiss,C. and Matschke,V.
  TITLE     ROS scavengers decrease gammaH2ax spots in motor neuronal nuclei of
            ALS model mice in vitro
  JOURNAL   Front Cell Neurosci 16, 963169 (2022)
   PUBMED   36119129
  REMARK    Publication Status: Online-Only
REFERENCE   3  (bases 1 to 4569)
  AUTHORS   Petit,C.S., Lee,J.J., Boland,S., Swarup,S., Christiano,R.,
            Lai,Z.W., Mejhert,N., Elliott,S.D., McFall,D., Haque,S.,
            Huang,E.J., Bronson,R.T., Harper,J.W., Farese,R.V. Jr. and
            Walther,T.C.
  TITLE     Inhibition of sphingolipid synthesis improves outcomes and survival
            in GARP mutant wobbler mice, a model of motor neuron degeneration
  JOURNAL   Proc Natl Acad Sci U S A 117 (19), 10565-10574 (2020)
   PUBMED   32345721
REFERENCE   4  (bases 1 to 4569)
  AUTHORS   Meyer,M., Kruse,M.S., Garay,L., Lima,A., Roig,P., Hunt,H.,
            Belanoff,J., de Kloet,E.R., Deniselle,M.C.G. and De Nicola,A.F.
  TITLE     Long-term effects of the glucocorticoid receptor modulator
            CORT113176 in murine motoneuron degeneration
  JOURNAL   Brain Res 1727, 146551 (2020)
   PUBMED   31726042
REFERENCE   5  (bases 1 to 4569)
  AUTHORS   Meyer,M., Lara,A., Hunt,H., Belanoff,J., de Kloet,E.R., Gonzalez
            Deniselle,M.C. and De Nicola,A.F.
  TITLE     The Selective Glucocorticoid Receptor Modulator Cort 113176 Reduces
            Neurodegeneration and Neuroinflammation in Wobbler Mice Spinal Cord
  JOURNAL   Neuroscience 384, 384-396 (2018)
   PUBMED   29890290
REFERENCE   6  (bases 1 to 4569)
  AUTHORS   Yung,K.K., Tang,F. and Vacca-Galloway,L.L.
  TITLE     Decrease of enkephalins in cerebellum during Wobbler mouse
            motoneuron disease
  JOURNAL   Brain Res 599 (1), 175-180 (1992)
   PUBMED   1283561
REFERENCE   7  (bases 1 to 4569)
  AUTHORS   Yung,K.K., Tang,F., Fielding,R., Du,Y.H. and Vacca-Galloway,L.L.
  TITLE     Alteration in the levels of thyrotropin releasing hormone,
            substance P and enkephalins in the spinal cord, brainstem,
            hypothalamus and midbrain of the Wobbler mouse at different stages
            of the motoneuron disease
  JOURNAL   Neuroscience 50 (1), 209-222 (1992)
   PUBMED   1383870
  REMARK    Erratum:[Neurosciecne 1993 Aug;55(3):881]
REFERENCE   8  (bases 1 to 4569)
  AUTHORS   Kaupmann,K., Simon-Chazottes,D., Guenet,J.L. and Jockusch,H.
  TITLE     Wobbler, a mutation affecting motoneuron survival and gonadal
            functions in the mouse, maps to proximal chromosome 11
  JOURNAL   Genomics 13 (1), 39-43 (1992)
   PUBMED   1349581
REFERENCE   9  (bases 1 to 4569)
  AUTHORS   Brooks,B.R., Lust,W.D., Andrews,J.M. and Engel,W.K.
  TITLE     Decreased spinal cord cGMP in murine (wobbler) spontaneous lower
            motor neuron degeneration
  JOURNAL   Arch Neurol 35 (9), 590-591 (1978)
   PUBMED   210748
REFERENCE   10 (bases 1 to 4569)
  AUTHORS   Andrews,J.M.
  TITLE     The fine structure of the cervical spinal cord, ventral root and
            brachial nerves in the wobbler (wr) mouse
  JOURNAL   J Neuropathol Exp Neurol 34 (1), 12-27 (1975)
   PUBMED   1117319
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            CJ134863.1, AL669979.13, AF424699.2 and AK036667.1.
            
            On Mar 15, 2014 this sequence version replaced NM_139061.4.
            
            Transcript Variant: This variant (1) represents the longer
            transcript and encodes the longer isoform (1).
            
            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 :: AF424699.2, SRR11927932.1670196.1
                                           [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMN00849380, SAMN00849381
                                           [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
            1-68                CJ134863.1         133-200
            69-69               AL669979.13        152481-152481
            70-198              CJ134863.1         202-330
            199-206             AL669979.13        152611-152618
            207-257             CJ134863.1         339-389
            258-1954            AF424699.2         9-1705
            1955-4457           AK036667.1         702-3204
            4458-4569           AF424699.2         4210-4321
FEATURES             Location/Qualifiers
     source          1..4569
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="11"
                     /map="11 13.89 cM"
     gene            1..4569
                     /gene="Vps54"
                     /gene_synonym="Hcc8; mSLP8; Vps54l; wr"
                     /note="VPS54 GARP complex subunit"
                     /db_xref="GeneID:245944"
                     /db_xref="MGI:MGI:2178798"
     exon            1..340
                     /gene="Vps54"
                     /gene_synonym="Hcc8; mSLP8; Vps54l; wr"
                     /inference="alignment:Splign:2.1.0"
     exon            341..496
                     /gene="Vps54"
                     /gene_synonym="Hcc8; mSLP8; Vps54l; wr"
                     /inference="alignment:Splign:2.1.0"
     CDS             361..3294
                     /gene="Vps54"
                     /gene_synonym="Hcc8; mSLP8; Vps54l; wr"
                     /note="isoform 1 is encoded by transcript variant 1;
                     vacuolar protein sorting-associated protein 54; tumor
                     antigen SLP-8p homolog; vacuolar protein sorting 54"
                     /codon_start=1
                     /product="vacuolar protein sorting-associated protein 54
                     isoform 1"
                     /protein_id="NP_620692.3"
                     /db_xref="CCDS:CCDS24463.1"
                     /db_xref="GeneID:245944"
                     /db_xref="MGI:MGI:2178798"
                     /translation="MASSHSSSPVPQGSSSDVFFKKEVDPTKHIRPVQSLPDVCPKEP
                     TGDSHTLCVAPSLVTDQHRWTVYHSKVNLPAALNDPTLAKRESDFFTKTWGLDFVDTE
                     VIPSLYLPQISKENFIAYQQEISQREKIHERCKNICPPKDTFDRTLLHIHDKSRTDLE
                     QVPKIFMKPDFALDDSLTFNSVLPWSHFNTAGGKGSRDAASSKLLQEKLSHYLDIVEV
                     NIAHQISLRSEAFFHAMTSQHELQDYLKKTTQAVKMLRDKIAQIDKVMCEGSLQILRL
                     ALTRNNCVKVYNKLKLMATVHQTQPTVQVLLSTSEFVGALDLIATTQEVLQQELQGIH
                     SFRHLGSQLCELEKLIDKMMIAEFSTYSHSDLNRPLEGECQVLEEERLVSLVFGLLKQ
                     RKLNFLEIYGEEMIITAKNIIKERVINKVSQIEEIDTDVVVKLADQMRMLNFPQWIDL
                     LKDIFSKFTVFLQRVKATLNIIHSVVLSVLEKSQRTRELEEIPQQRSAGKDSSLDTDV
                     AYLTHEGWFISDAFSEGEPASAAVDTTSQRNTSPHSEPCSSDSVSEPECTTDSSSSKE
                     QTSACAPPGGIEIIVSEDMRLTDLELGKLASNIQELLCNASDVCHDRAVKFLMSRAKD
                     GFLEKLNSTEFIALSRLMETFIVDTEQICGRKSTSLLGALQSQANKFVNRFHEERRTK
                     LSLLLDNERWKQADVPAEFQDLVDSIADGKIALPEKKPVVTEERKPADVLVVEGHQYA
                     VVGTVLLLIRIILEYCQCVDNIPSVTTDMLTRLTDLLKYFNSRSCQLVLGAGALQVVG
                     LKTITTKNLALSSRCLQLIVHYIPVIRAHFEARLPPKQWSMLRHFDHITKDYHDHIAE
                     ISAKLVAIMDSLFDKLLSKYEVKAPVPSPCFRNICKQMTKMHEAIFDLLPEEQTQMLF
                     LRINASYKLHLKKQLSHLNVINDGGPQNGLVTADVAFYTGNLQALKGLKDLDLNMAEI
                     WEQKR"
     exon            497..738
                     /gene="Vps54"
                     /gene_synonym="Hcc8; mSLP8; Vps54l; wr"
                     /inference="alignment:Splign:2.1.0"
     exon            739..817
                     /gene="Vps54"
                     /gene_synonym="Hcc8; mSLP8; Vps54l; wr"
                     /inference="alignment:Splign:2.1.0"
     exon            818..852
                     /gene="Vps54"
                     /gene_synonym="Hcc8; mSLP8; Vps54l; wr"
                     /inference="alignment:Splign:2.1.0"
     exon            853..984
                     /gene="Vps54"
                     /gene_synonym="Hcc8; mSLP8; Vps54l; wr"
                     /inference="alignment:Splign:2.1.0"
     exon            985..1370
                     /gene="Vps54"
                     /gene_synonym="Hcc8; mSLP8; Vps54l; wr"
                     /inference="alignment:Splign:2.1.0"
     exon            1371..1497
                     /gene="Vps54"
                     /gene_synonym="Hcc8; mSLP8; Vps54l; wr"
                     /inference="alignment:Splign:2.1.0"
     exon            1498..1605
                     /gene="Vps54"
                     /gene_synonym="Hcc8; mSLP8; Vps54l; wr"
                     /inference="alignment:Splign:2.1.0"
     exon            1606..1661
                     /gene="Vps54"
                     /gene_synonym="Hcc8; mSLP8; Vps54l; wr"
                     /inference="alignment:Splign:2.1.0"
     exon            1662..1758
                     /gene="Vps54"
                     /gene_synonym="Hcc8; mSLP8; Vps54l; wr"
                     /inference="alignment:Splign:2.1.0"
     exon            1759..2099
                     /gene="Vps54"
                     /gene_synonym="Hcc8; mSLP8; Vps54l; wr"
                     /inference="alignment:Splign:2.1.0"
     exon            2100..2229
                     /gene="Vps54"
                     /gene_synonym="Hcc8; mSLP8; Vps54l; wr"
                     /inference="alignment:Splign:2.1.0"
     exon            2230..2411
                     /gene="Vps54"
                     /gene_synonym="Hcc8; mSLP8; Vps54l; wr"
                     /inference="alignment:Splign:2.1.0"
     exon            2412..2524
                     /gene="Vps54"
                     /gene_synonym="Hcc8; mSLP8; Vps54l; wr"
                     /inference="alignment:Splign:2.1.0"
     exon            2525..2588
                     /gene="Vps54"
                     /gene_synonym="Hcc8; mSLP8; Vps54l; wr"
                     /inference="alignment:Splign:2.1.0"
     exon            2589..2694
                     /gene="Vps54"
                     /gene_synonym="Hcc8; mSLP8; Vps54l; wr"
                     /inference="alignment:Splign:2.1.0"
     exon            2695..2782
                     /gene="Vps54"
                     /gene_synonym="Hcc8; mSLP8; Vps54l; wr"
                     /inference="alignment:Splign:2.1.0"
     exon            2783..2904
                     /gene="Vps54"
                     /gene_synonym="Hcc8; mSLP8; Vps54l; wr"
                     /inference="alignment:Splign:2.1.0"
     exon            2905..2985
                     /gene="Vps54"
                     /gene_synonym="Hcc8; mSLP8; Vps54l; wr"
                     /inference="alignment:Splign:2.1.0"
     exon            2986..3093
                     /gene="Vps54"
                     /gene_synonym="Hcc8; mSLP8; Vps54l; wr"
                     /inference="alignment:Splign:2.1.0"
     exon            3094..3188
                     /gene="Vps54"
                     /gene_synonym="Hcc8; mSLP8; Vps54l; wr"
                     /inference="alignment:Splign:2.1.0"
     exon            3189..4569
                     /gene="Vps54"
                     /gene_synonym="Hcc8; mSLP8; Vps54l; wr"
                     /inference="alignment:Splign:2.1.0"
     regulatory      3792..3797
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Vps54"
                     /gene_synonym="Hcc8; mSLP8; Vps54l; wr"
                     /note="hexamer: AATAAA"
     polyA_site      3816
                     /gene="Vps54"
                     /gene_synonym="Hcc8; mSLP8; Vps54l; wr"
                     /note="major polyA site"
     regulatory      4539..4544
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Vps54"
                     /gene_synonym="Hcc8; mSLP8; Vps54l; wr"
                     /note="hexamer: AATAAA"
     polyA_site      4560
                     /gene="Vps54"
                     /gene_synonym="Hcc8; mSLP8; Vps54l; wr"
                     /note="major polyA site"
ORIGIN      
        1 ggcggcggct cccctggagg ccggggatgt gggagaggcg gcggcagcag cggcggaggc
       61 ggcgctgcgg acccggggga gactgctggc tgacaggaca cccgggcgag acgtgagggg
      121 cccgccgcgg ccgctctgcc cccgagcggc gctgggctcg agagggcggc cctgtgctcc
      181 cgggcccgcc ggccagcagg cgcggggcgg aggcgggaac cgggctcgga cccggcgcgc
      241 agggcggcgg cggccgcgga gcagcagtct cggcgcgacg tggagggatg gaggcggcgg
      301 tgcactaggc ctcgtctggg gctgccgccc gggaccgcag ttgagtggtg attttatgca
      361 atggcttcaa gccacagttc ttctccagtg cctcaaggaa gcagcagtga tgttttcttt
      421 aaaaaagagg tagatccaac aaaacacatt cgacctgtgc agtcactgcc agatgtgtgt
      481 cccaaggaac ccacaggtga ttcacatact ttatgtgttg ccccatctct agttacagat
      541 caacatagat ggactgtgta tcattccaaa gtaaatctcc cagcagcatt aaatgatcct
      601 acactagcaa aaagagaatc tgacttcttc acaaaaactt ggggattgga ctttgtggac
      661 actgaagtca taccttcact ctacctccca cagatcagca aggagaattt tatagcatat
      721 cagcaggaga tctctcagag agagaagatt catgagagat gcaagaatat ttgtcctcct
      781 aaagatacct ttgacaggac tcttttacat attcatgata aatccaggac agatctggag
      841 caagtaccta agatttttat gaaaccagat tttgccttgg atgattcttt aacttttaat
      901 tcagttttac catggtctca ttttaatact gctggtggga aaggaagtcg cgacgcagct
      961 tcttccaagt tgcttcagga aaagctgagc cattatctgg atattgtgga agtaaacatt
     1021 gctcaccaga tctctctacg ttcagaagca ttttttcatg caatgacctc tcaacacgaa
     1081 ttgcaggact acctcaagaa aactacccag gctgtaaaaa tgcttcgaga taaaattgca
     1141 cagattgata aagttatgtg tgaaggatca ctacagattt taagactggc acttaccaga
     1201 aataattgtg ttaaagtata caataaactg aagttaatgg ccactgtaca ccaaactcag
     1261 cctacagtgc aggtgttgtt atctacttct gaatttgttg gagcgttgga cttaatagca
     1321 acaactcaag aggttctgca gcaggagctt cagggcattc acagcttccg gcatttggga
     1381 tcacagcttt gtgaattaga aaagctgatt gataaaatga tgattgcaga attttctact
     1441 tattctcata gtgacttaaa tagaccactg gaaggtgaat gccaagtttt agaagaggaa
     1501 agattagtat ctcttgtatt tgggcttttg aaacaaagaa aacttaattt tttagaaatc
     1561 tatggtgaag aaatgattat tacagcaaag aacatcatta aagagcgtgt gattaataaa
     1621 gtttcacaaa tagaagaaat agacacagac gttgttgtaa agcttgcaga tcaaatgaga
     1681 atgttgaatt ttccccagtg gattgatctg ttaaaggaca ttttctctaa gtttacagtt
     1741 ttcctacaga gagttaaggc aacattgaat attatccaca gtgttgttct gtcagttctt
     1801 gagaaaagcc aaaggactag agaattggaa gagatcccac agcagaggag cgctgggaag
     1861 gacagctcct tggacacaga cgtggcttac ctgacacacg agggctggtt cataagtgat
     1921 gctttcagtg agggtgagcc agcatctgcg gcggttgata ctacctctca aagaaacacg
     1981 tctccacata gcgagccctg cagcagtgat tcggtatcag aaccagaatg tactactgat
     2041 tcttcatcca gcaaggagca gacatcagcg tgtgctcctc caggaggtat agagattata
     2101 gtcagtgaag acatgaggtt aactgacttg gagctaggaa aactagcaag taacatccag
     2161 gagttactgt gtaatgcttc agatgtatgc catgatcgag ctgtcaaatt tctcatgtca
     2221 agagcaaagg acggttttct tgaaaaattg aattccacgg aattcatagc actctcgaga
     2281 ttaatggaga cattcatagt ggacactgaa cagatctgtg ggaggaagag cacgtcactg
     2341 cttggggccc ttcagagcca agcaaataag tttgtgaaca ggtttcatga agagaggcgg
     2401 accaagctca gcctcctctt agacaacgag cgttggaagc aggctgatgt tcctgcagaa
     2461 tttcaggatc ttgttgattc tatagcggat ggaaagattg ctttacctga aaaaaagcca
     2521 gtggttacag aagaaaggaa gccagctgat gttcttgttg ttgagggaca ccagtatgca
     2581 gttgtcggaa ccgtcttgct gttaataaga atcattcttg aatattgcca gtgtgtggat
     2641 aacatcccct ccgtcactac tgacatgctc actcgcctga cagatctgct gaagtacttc
     2701 aattcaagaa gttgccagtt agttcttgga gctggtgctt tgcaagttgt tggactaaaa
     2761 acaattacta caaaaaactt ggccctctct tcacggtgtc tgcagttgat tgtgcactac
     2821 attcccgtga tccgggctca ctttgaagcc cgactgcccc ccaagcaatg gagcatgctt
     2881 agacattttg atcacatcac aaaggattac catgatcata tagctgaaat ttcagctaag
     2941 cttgtagcga taatggatag cctatttgat aagctgttat caaagtatga ggtgaaagct
     3001 cctgttcctt ccccgtgttt caggaatatt tgtaagcaaa tgacaaaaat gcatgaagct
     3061 atatttgatc ttcttcccga agaacaaaca cagatgttat ttttaagaat taatgcaagt
     3121 tacaaactcc acttgaaaaa acagttatca cacttaaatg taataaatga cggaggacct
     3181 caaaatgggt tggtcacagc agatgtagct ttttacactg gaaatcttca agccttaaaa
     3241 ggccttaaag atctggatct aaatatggcc gagatctggg aacagaagag gtgatgacag
     3301 actggagacc caggtcgttc atctgaccac gggatgtgtt tctgaagaaa atctggatgc
     3361 ctggtgtgtt aggaactgaa cctgggaccc aaagtgactg aggtggggga agggaaaaga
     3421 aggatcagtg ttgggaactg gattcagtgg gatctacaga gaaagccatt ctgtgcatcc
     3481 ctgagtaagg agcaagtgat caggtgtcta taacattttt cattctctct ggaaacagac
     3541 tcaggtttct ttggaccaaa tccaaaagaa cacatagctg taacacagct gtagctgcct
     3601 agaatgctct gtatacttta tattaaaaat gctctgcatt tcttccagtg caatgaaatt
     3661 catatggtgt cccaccttat ttaatgatgg tacaattgaa aatattaaaa tcttagtcaa
     3721 cctctgtaga aagttttctc tatgaaagta aagctgtttg agaaattatt tttttacaga
     3781 tctttataaa aaataaacat cttttgattg cttggattta ggaattcagt ttttgtttta
     3841 atgaccaatg tcaagtttca ggttttgtgt gctgcatatt taactttttc actaccactg
     3901 ttatgtcact gggtaaaagc ctcaaactgt taaatatatg ggagactgat tataaagaat
     3961 aaagaatatt tgcatttact tatgcaacta ctaatttaaa tactttccag aagtgggata
     4021 cataaagcta tggtttaata gctgtattta ttaaagtacc tatgaagggt ttggggtagc
     4081 attctgtttt ttctttgctt tttcatttct agcagaggca agaatacata ttcatatacg
     4141 cttacttatg aattaccatt ttaacattta gataacatga aatatggccc tcttgaattc
     4201 ttgcttttaa gttccttttg atatgtatat aagcaaagac cagggataaa tggaattttt
     4261 aaaatacagg ctgctgtgtt ggggccagaa atacaaggtt gatgagtaag ctatctgaag
     4321 acttttataa tgcctacctt caaaaccaga atcggcagca ctctacaaat gaaagtgcct
     4381 gtgtctcaca ccaagaatct tgcctaacct gtcagagtgc ctaatcttgt ggttataatg
     4441 tacaatgaaa taatcttgtg ggggtttttt gttttctcaa gaggaatttt ttttttttat
     4501 cattgcagag gtatgtcatt ggttcttaaa ctgtcaaaaa taaagatgta caaaaacaga
     4561 cttaaaagg
//
