LOCUS       NM_026664               2824 bp    mRNA    linear   ROD 02-MAY-2024
DEFINITION  Mus musculus VPS53 GARP complex subunit (Vps53), transcript variant
            1, mRNA.
ACCESSION   NM_026664
VERSION     NM_026664.4
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 2824)
  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 2824)
  AUTHORS   Ingham,N.J., Pearson,S.A., Vancollie,V.E., Rook,V., Lewis,M.A.,
            Chen,J., Buniello,A., Martelletti,E., Preite,L., Lam,C.C.,
            Weiss,F.D., Powis,Z., Suwannarat,P., Lelliott,C.J., Dawson,S.J.,
            White,J.K. and Steel,K.P.
  TITLE     Mouse screen reveals multiple new genes underlying mouse and human
            hearing loss
  JOURNAL   PLoS Biol 17 (4), e3000194 (2019)
   PUBMED   30973865
  REMARK    Publication Status: Online-Only
REFERENCE   3  (bases 1 to 2824)
  AUTHORS   Wei,J., Zhang,Y.Y., Luo,J., Wang,J.Q., Zhou,Y.X., Miao,H.H.,
            Shi,X.J., Qu,Y.X., Xu,J., Li,B.L. and Song,B.L.
  TITLE     The GARP Complex Is Involved in Intracellular Cholesterol Transport
            via Targeting NPC2 to Lysosomes
  JOURNAL   Cell Rep 19 (13), 2823-2835 (2017)
   PUBMED   28658628
REFERENCE   4  (bases 1 to 2824)
  AUTHORS   Schindler,C., Chen,Y., Pu,J., Guo,X. and Bonifacino,J.S.
  TITLE     EARP is a multisubunit tethering complex involved in endocytic
            recycling
  JOURNAL   Nat Cell Biol 17 (5), 639-650 (2015)
   PUBMED   25799061
REFERENCE   5  (bases 1 to 2824)
  AUTHORS   Karlsson,P., Droce,A., Moser,J.M., Cuhlmann,S., Padilla,C.O.,
            Heimann,P., Bartsch,J.W., Fuchtbauer,A., Fuchtbauer,E.M. and
            Schmitt-John,T.
  TITLE     Loss of vps54 function leads to vesicle traffic impairment, protein
            mis-sorting and embryonic lethality
  JOURNAL   Int J Mol Sci 14 (6), 10908-10925 (2013)
   PUBMED   23708095
  REMARK    Publication Status: Online-Only
REFERENCE   6  (bases 1 to 2824)
  AUTHORS   Gan,Y., Zhao,X., Hu,J., Wang,Z.G. and Zhao,X.T.
  TITLE     HCCS1 overexpression induces apoptosis via cathepsin D and
            intracellular calcium, and HCCS1 disruption in mice causes
            placental abnormality
  JOURNAL   Cell Death Differ 15 (9), 1481-1490 (2008)
   PUBMED   18511934
  REMARK    GeneRIF: Disruption of HCCS1 in mice leads to embryonic lethality,
            accompanied by abnormal labyrinth architecture resulting from the
            excessive proliferation of trophoblast cells in the placenta.
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            AK009586.1 and AK033495.1.
            
            On Jul 3, 2018 this sequence version replaced NM_026664.3.
            
            ##Evidence-Data-START##
            Transcript exon combination :: AK033495.1, AK019408.1 [ECO:0000332]
            RNAseq introns              :: mixed sample support SAMN00849374,
                                           SAMN00849375 [ECO:0006172]
            ##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
            1-8                 AK009586.1         2-9
            9-2824              AK033495.1         2-2817
FEATURES             Location/Qualifiers
     source          1..2824
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="11"
                     /map="11 45.92 cM"
     gene            1..2824
                     /gene="Vps53"
                     /gene_synonym="2010002A08Rik; 2310040I21Rik;
                     3100002B05Rik; Hccs1"
                     /note="VPS53 GARP complex subunit"
                     /db_xref="GeneID:68299"
                     /db_xref="MGI:MGI:1915549"
     exon            1..226
                     /gene="Vps53"
                     /gene_synonym="2010002A08Rik; 2310040I21Rik;
                     3100002B05Rik; Hccs1"
                     /inference="alignment:Splign:2.1.0"
     CDS             140..2638
                     /gene="Vps53"
                     /gene_synonym="2010002A08Rik; 2310040I21Rik;
                     3100002B05Rik; Hccs1"
                     /note="isoform 1 is encoded by transcript variant 1;
                     vacuolar protein sorting-associated protein 53 homolog"
                     /codon_start=1
                     /product="vacuolar protein sorting-associated protein 53
                     homolog isoform 1"
                     /protein_id="NP_080940.2"
                     /db_xref="CCDS:CCDS25060.1"
                     /db_xref="GeneID:68299"
                     /db_xref="MGI:MGI:1915549"
                     /translation="MMEEEELEFVEELEAVLQLTPEVQLAIEQVFPSQDPLDQADFNA
                     VEYINTLFPTEQSLANIDDVVNKIRLKIRRLDDNIRTVVRGQTNVGQDGRQALEEAQK
                     AIQQLFGKIKDIKDKAEKSEQMVKEITRDIKQLDHAKRHLTTSITTLNHLHMLAGGVD
                     SLEAMTRRRQYGEVANLLQGVMNVLEHFHKYMGIPQIRQLSERVKAAQTELGQQILAD
                     FEEAFPSQGTKRPGGPSNVLRDACLVANILDPRIKQEIIKKFIKQHLSEYLVLFQENQ
                     DVAWLDKIDRRYAWVKRQLVDYEEKYGRMFPREWCMTERISVEFCHVTRAELSKIMRA
                     RAKEIEVKLLLFAIQRTTNFEGFLAKRFSGCTLTDGTLKKLESPPPSTNPFLEDETTP
                     EMEELALEKGELEQPKKPKAPDNPFHGIVSKCFEPHLYVYIESQDKNLSELIDRFVAD
                     FKAQGPPKPNTDEGGAVLPSCADLFVYYKKCMVQCSQLSTGEPMIALTTIFQKYLREY
                     AWKILSGNLPKTSSSSGGLTISSLLKEKEGSEVARFTLEELCLICSILSTAEYCLATT
                     QQLEEKLKEKVDVSLTERINLTGEMDTFSTVISSSIQLLVQDLDAACDPALIAMSKMP
                     WQNVEHVGDQSPYVTSVILHIKQNVPIIRDNLASTRKYFTQFCIKFANSFIPKFITHL
                     FKCKPISMVGAEQLLLDTHSLKMVLLDLPSIGSQVVRKAPASYTKIVVKGMTRAEMIL
                     KVVMAPHEPLVVFVDNYIKLLTDCNSETFQKILDMKGLKRSEQSSMLELLRQRLPAPP
                     SGTEGSSTLSLIAPTPEQESSRIRKLEKLIKKRL"
     exon            227..307
                     /gene="Vps53"
                     /gene_synonym="2010002A08Rik; 2310040I21Rik;
                     3100002B05Rik; Hccs1"
                     /inference="alignment:Splign:2.1.0"
     exon            308..357
                     /gene="Vps53"
                     /gene_synonym="2010002A08Rik; 2310040I21Rik;
                     3100002B05Rik; Hccs1"
                     /inference="alignment:Splign:2.1.0"
     exon            358..424
                     /gene="Vps53"
                     /gene_synonym="2010002A08Rik; 2310040I21Rik;
                     3100002B05Rik; Hccs1"
                     /inference="alignment:Splign:2.1.0"
     exon            425..511
                     /gene="Vps53"
                     /gene_synonym="2010002A08Rik; 2310040I21Rik;
                     3100002B05Rik; Hccs1"
                     /inference="alignment:Splign:2.1.0"
     exon            512..627
                     /gene="Vps53"
                     /gene_synonym="2010002A08Rik; 2310040I21Rik;
                     3100002B05Rik; Hccs1"
                     /inference="alignment:Splign:2.1.0"
     exon            628..747
                     /gene="Vps53"
                     /gene_synonym="2010002A08Rik; 2310040I21Rik;
                     3100002B05Rik; Hccs1"
                     /inference="alignment:Splign:2.1.0"
     exon            748..826
                     /gene="Vps53"
                     /gene_synonym="2010002A08Rik; 2310040I21Rik;
                     3100002B05Rik; Hccs1"
                     /inference="alignment:Splign:2.1.0"
     exon            827..970
                     /gene="Vps53"
                     /gene_synonym="2010002A08Rik; 2310040I21Rik;
                     3100002B05Rik; Hccs1"
                     /inference="alignment:Splign:2.1.0"
     exon            971..1113
                     /gene="Vps53"
                     /gene_synonym="2010002A08Rik; 2310040I21Rik;
                     3100002B05Rik; Hccs1"
                     /inference="alignment:Splign:2.1.0"
     exon            1114..1255
                     /gene="Vps53"
                     /gene_synonym="2010002A08Rik; 2310040I21Rik;
                     3100002B05Rik; Hccs1"
                     /inference="alignment:Splign:2.1.0"
     exon            1256..1357
                     /gene="Vps53"
                     /gene_synonym="2010002A08Rik; 2310040I21Rik;
                     3100002B05Rik; Hccs1"
                     /inference="alignment:Splign:2.1.0"
     exon            1358..1452
                     /gene="Vps53"
                     /gene_synonym="2010002A08Rik; 2310040I21Rik;
                     3100002B05Rik; Hccs1"
                     /inference="alignment:Splign:2.1.0"
     exon            1453..1695
                     /gene="Vps53"
                     /gene_synonym="2010002A08Rik; 2310040I21Rik;
                     3100002B05Rik; Hccs1"
                     /inference="alignment:Splign:2.1.0"
     exon            1696..1843
                     /gene="Vps53"
                     /gene_synonym="2010002A08Rik; 2310040I21Rik;
                     3100002B05Rik; Hccs1"
                     /inference="alignment:Splign:2.1.0"
     exon            1844..1926
                     /gene="Vps53"
                     /gene_synonym="2010002A08Rik; 2310040I21Rik;
                     3100002B05Rik; Hccs1"
                     /inference="alignment:Splign:2.1.0"
     exon            1927..2005
                     /gene="Vps53"
                     /gene_synonym="2010002A08Rik; 2310040I21Rik;
                     3100002B05Rik; Hccs1"
                     /inference="alignment:Splign:2.1.0"
     exon            2006..2154
                     /gene="Vps53"
                     /gene_synonym="2010002A08Rik; 2310040I21Rik;
                     3100002B05Rik; Hccs1"
                     /inference="alignment:Splign:2.1.0"
     exon            2155..2224
                     /gene="Vps53"
                     /gene_synonym="2010002A08Rik; 2310040I21Rik;
                     3100002B05Rik; Hccs1"
                     /inference="alignment:Splign:2.1.0"
     exon            2225..2362
                     /gene="Vps53"
                     /gene_synonym="2010002A08Rik; 2310040I21Rik;
                     3100002B05Rik; Hccs1"
                     /inference="alignment:Splign:2.1.0"
     exon            2363..2467
                     /gene="Vps53"
                     /gene_synonym="2010002A08Rik; 2310040I21Rik;
                     3100002B05Rik; Hccs1"
                     /inference="alignment:Splign:2.1.0"
     exon            2468..2824
                     /gene="Vps53"
                     /gene_synonym="2010002A08Rik; 2310040I21Rik;
                     3100002B05Rik; Hccs1"
                     /inference="alignment:Splign:2.1.0"
     regulatory      2734..2739
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Vps53"
                     /gene_synonym="2010002A08Rik; 2310040I21Rik;
                     3100002B05Rik; Hccs1"
                     /note="hexamer: ATTAAA"
     polyA_site      2754
                     /gene="Vps53"
                     /gene_synonym="2010002A08Rik; 2310040I21Rik;
                     3100002B05Rik; Hccs1"
                     /note="major polyA site"
ORIGIN      
        1 agttctccgg aagtgccagg ctagccgagt aagtagcggc tccctcgagc cccgtacctg
       61 gaggcttgct cttctggggt cctggtgaca gacaggtcgc gagcaggatt ggagagggcg
      121 tcgggggctg agcggcggga tgatggagga ggaggaactg gagtttgtgg aggagctgga
      181 ggctgtgctg cagctcacgc cagaggtgca actcgccatc gagcaggtat tcccaagcca
      241 ggatcctctt gatcaagctg acttcaatgc cgttgagtat atcaatactc tgttcccaac
      301 agagcaatct ctggcaaaca ttgacgatgt tgtgaacaaa attagactga aaataaggag
      361 actggatgac aatatccgga ctgtcgtaag aggtcagaca aatgtggggc aggatggaag
      421 gcaagcactt gaagaggccc agaaagccat tcagcaactc tttggcaaaa tcaaggatat
      481 caaagacaaa gcagaaaagt cagaacaaat ggtgaaagag atcacccgag atattaagca
      541 gttagatcac gccaagcgcc acctgaccac ctcaatcacg accctgaacc acctgcacat
      601 gctggcaggc ggggtggact ccctggaagc catgaccagg cgcagacagt atggagaagt
      661 tgctaatctc cttcagggtg taatgaatgt tctggagcac tttcacaaat acatgggaat
      721 cccacagatc cgacagcttt ctgaaagggt gaaggctgca cagacagagt taggacagca
      781 aatcctggct gactttgaag aagcatttcc ttcgcagggt accaagaggc cgggaggacc
      841 cagcaatgtc ctgagagatg cgtgcctggt ggctaatatt ttggacccca gaatcaaaca
      901 agaaatcatc aaaaagttta ttaaacagca tctatcagag tatctagtac tttttcaaga
      961 aaaccaagat gtcgcctggc tggacaaaat tgacagacgt tatgcttggg tgaaacgcca
     1021 gcttgtggac tatgaagaga agtatggccg gatgtttcct cgggagtggt gcatgacgga
     1081 gaggatctca gtagagtttt gccacgtgac gagggcagaa ctttccaaaa tcatgcgtgc
     1141 cagagctaag gaaattgaag tgaaattgct tctttttgcg atccagagaa caaccaactt
     1201 tgaggggttt cttgcaaaac gcttctccgg ttgcaccctg acagatggaa ccctgaaaaa
     1261 gctggagtcc ccaccaccat ctaccaatcc tttcctggaa gatgagacaa caccagagat
     1321 ggaggagctg gctctggaga aaggagagtt agagcaaccg aagaagccca aggccccgga
     1381 caacccgttc cacggcatcg tttccaagtg ttttgagcct catctctacg tgtacattga
     1441 gtcccaggac aaaaacctca gcgagctgat agaccggttt gtggcagatt tcaaagccca
     1501 gggcccaccc aagcccaaca ctgacgaagg gggtgctgtg ctccccagct gcgctgacct
     1561 ctttgtctac tacaagaagt gcatggtgca gtgctcacag ctcagcacag gcgagcccat
     1621 gatcgccctg actaccatct tccagaagta cctccgagaa tacgcctgga aaatcctctc
     1681 tggcaacctg cctaaaacca gcagcagcag tggggggctg accatcagca gcctcctcaa
     1741 agagaaggag ggctcagaag tggccaggtt cactctggag gagctgtgtc tcatctgcag
     1801 catcctgagc acagccgagt attgtctggc taccacccag cagctagaag aaaaactcaa
     1861 agaaaaagtt gatgtgagcc tgactgaacg aattaatctc acaggagaaa tggacacatt
     1921 cagcactgtc atctccagca gcatccagct gttggttcaa gatctggatg cagcctgtga
     1981 ccctgccctg attgccatga gcaagatgcc ttggcagaac gtggagcatg ttggtgacca
     2041 gagcccttat gtcacttctg ttattcttca cattaagcaa aacgtcccca tcatccgtga
     2101 caacctggct tccacacgga aatacttcac acagttctgc attaaatttg caaattcgtt
     2161 cattcccaaa ttcatcaccc acctcttcaa gtgtaagccg atcagcatgg tgggagcaga
     2221 gcagcttctg ctggacaccc actccctgaa gatggtcctg ctcgaccttc cgtccattgg
     2281 ctcccaggtg gtgaggaagg cccctgccag ttacactaag attgtcgtga aaggcatgac
     2341 ccgggctgaa atgatcctta aggtggtgat ggcccctcat gaaccgttgg tggtatttgt
     2401 tgacaactac atcaaactcc ttacggactg caactcagaa accttccaga aaatactgga
     2461 tatgaagggg ctgaagagga gtgagcagag cagcatgctg gaacttttgc ggcagaggct
     2521 ccctgccccg ccctcgggga cagaaggttc cagcaccctg tcgctgattg ccccaacacc
     2581 ggagcaggag tcatcccgaa tccgcaaact ggagaaactg attaaaaaga gactgtaagg
     2641 agtgggaagg catggccaga gtcctgaaca gccgacttct gcaaaccctc acactgagtc
     2701 ctgagtcttg aagcctctga gaacattacg gttattaaag tatctctctc ataacatgtc
     2761 ttattttcta tctcagtcat ggaagctcag tgaaatctgt gttattaaaa ggcattttta
     2821 gatt
//
