LOCUS       NM_173147               4174 bp    mRNA    linear   ROD 30-MAR-2024
DEFINITION  Rattus norvegicus VPS54 subunit of GARP complex (Vps54), mRNA.
ACCESSION   NM_173147 XM_214105
VERSION     NM_173147.2
KEYWORDS    RefSeq; RefSeq Select.
SOURCE      Rattus norvegicus (Norway rat)
  ORGANISM  Rattus norvegicus
            Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
            Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha;
            Muroidea; Muridae; Murinae; Rattus.
REFERENCE   1  (bases 1 to 4174)
  AUTHORS   Topalidou,I., Cattin-Ortola,J., Pappas,A.L., Cooper,K.,
            Merrihew,G.E., MacCoss,M.J. and Ailion,M.
  TITLE     The EARP Complex and Its Interactor EIPR-1 Are Required for Cargo
            Sorting to Dense-Core Vesicles
  JOURNAL   PLoS Genet 12 (5), e1006074 (2016)
   PUBMED   27191843
  REMARK    Publication Status: Online-Only
REFERENCE   2  (bases 1 to 4174)
  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   3  (bases 1 to 4174)
  AUTHORS   Rosa-Ferreira,C., Christis,C., Torres,I.L. and Munro,S.
  TITLE     The small G protein Arl5 contributes to endosome-to-Golgi traffic
            by aiding the recruitment of the GARP complex to the Golgi
  JOURNAL   Biol Open 4 (4), 474-481 (2015)
   PUBMED   25795912
  REMARK    Publication Status: Online-Only
REFERENCE   4  (bases 1 to 4174)
  AUTHORS   Perez-Victoria,F.J. and Bonifacino,J.S.
  TITLE     Dual roles of the mammalian GARP complex in tethering and SNARE
            complex assembly at the trans-golgi network
  JOURNAL   Mol Cell Biol 29 (19), 5251-5263 (2009)
   PUBMED   19620288
REFERENCE   5  (bases 1 to 4174)
  AUTHORS   Liewen,H., Meinhold-Heerlein,I., Oliveira,V., Schwarzenbacher,R.,
            Luo,G., Wadle,A., Jung,M., Pfreundschuh,M. and Stenner-Liewen,F.
  TITLE     Characterization of the human GARP (Golgi associated retrograde
            protein) complex
  JOURNAL   Exp Cell Res 306 (1), 24-34 (2005)
   PUBMED   15878329
REFERENCE   6  (bases 1 to 4174)
  AUTHORS   Walter,L., Stark,S., Helou,K., Flugge,P., Levan,G. and Gunther,E.
  TITLE     Identification, characterization and cytogenetic mapping of a yeast
            Vps54 homolog in rat and mouse
  JOURNAL   Gene 285 (1-2), 213-220 (2002)
   PUBMED   12039048
REFERENCE   7  (bases 1 to 4174)
  AUTHORS   Pernas-Alonso,R., Perrone-Capano,C., Volpicelli,F. and di Porzio,U.
  TITLE     Regionalized neurofilament accumulation and motoneuron degeneration
            are linked phenotypes in wobbler neuromuscular disease
  JOURNAL   Neurobiol Dis 8 (4), 581-589 (2001)
   PUBMED   11493023
REFERENCE   8  (bases 1 to 4174)
  AUTHORS   Coulpier,M., Junier,M.P., Peschanski,M. and Dreyfus,P.A.
  TITLE     Bcl-2 sensitivity differentiates two pathways for motoneuronal
            death in the wobbler mutant mouse
  JOURNAL   J Neurosci 16 (19), 5897-5904 (1996)
   PUBMED   8815872
REFERENCE   9  (bases 1 to 4174)
  AUTHORS   Canestri,F.
  TITLE     A proposed clinical application of a model of CO2 laser radiation
            induced damage craters
  JOURNAL   J Med Eng Technol 12 (3), 112-117 (1988)
   PUBMED   3172165
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            JAXUCZ010000014.1.
            
            On Dec 5, 2020 this sequence version replaced NM_173147.1.
            
            Sequence Note: The RefSeq transcript and protein were derived from
            genomic sequence to make the sequence consistent with the reference
            genome assembly. The genomic coordinates used for the transcript
            record were based on alignments.
            
            ##Evidence-Data-START##
            Transcript exon combination :: AJ010392.3, SRR26360172.1854413.1
                                           [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA5760383, SAMEA5760386
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            RefSeq Select criteria :: based on conservation
            ##RefSeq-Attributes-END##
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-158               JAXUCZ010000014.1  99603036-99603193
            159-364             JAXUCZ010000014.1  99604303-99604508
            365-443             JAXUCZ010000014.1  99608516-99608594
            444-478             JAXUCZ010000014.1  99611008-99611042
            479-610             JAXUCZ010000014.1  99614423-99614554
            611-996             JAXUCZ010000014.1  99617021-99617406
            997-1123            JAXUCZ010000014.1  99628424-99628550
            1124-1231           JAXUCZ010000014.1  99629433-99629540
            1232-1287           JAXUCZ010000014.1  99632174-99632229
            1288-1384           JAXUCZ010000014.1  99634638-99634734
            1385-1725           JAXUCZ010000014.1  99635871-99636211
            1726-1855           JAXUCZ010000014.1  99641204-99641333
            1856-2037           JAXUCZ010000014.1  99641970-99642151
            2038-2150           JAXUCZ010000014.1  99642586-99642698
            2151-2214           JAXUCZ010000014.1  99644192-99644255
            2215-2320           JAXUCZ010000014.1  99646366-99646471
            2321-2408           JAXUCZ010000014.1  99647307-99647394
            2409-2611           JAXUCZ010000014.1  99647897-99648099
            2612-2719           JAXUCZ010000014.1  99650895-99651002
            2720-2814           JAXUCZ010000014.1  99652817-99652911
            2815-4174           JAXUCZ010000014.1  99655819-99657178
FEATURES             Location/Qualifiers
     source          1..4174
                     /organism="Rattus norvegicus"
                     /mol_type="mRNA"
                     /strain="BN"
                     /db_xref="taxon:10116"
                     /chromosome="14"
                     /map="14q22"
     gene            1..4174
                     /gene="Vps54"
                     /gene_synonym="Vsp54"
                     /note="VPS54 subunit of GARP complex"
                     /db_xref="GeneID:286932"
                     /db_xref="RGD:628718"
     exon            1..158
                     /gene="Vps54"
                     /gene_synonym="Vsp54"
                     /inference="alignment:Splign:2.1.0"
     CDS             23..2920
                     /gene="Vps54"
                     /gene_synonym="Vsp54"
                     /note="vps54-like protein; vacuolar protein sorting 54
                     homolog; VPS54 GARP complex subunit"
                     /codon_start=1
                     /product="vacuolar protein sorting-associated protein 54"
                     /protein_id="NP_775170.2"
                     /db_xref="GeneID:286932"
                     /db_xref="RGD:628718"
                     /translation="MASSHSSSPVPQGSSSDVFFKKEVDPTKHVRPVQSLPDVCPKEP
                     TVTDQHRWTVYHSKVNLPAALNDPTLAKRESDFFTKTWGLDFVDTEVIPSLYLPQISK
                     EHFIAYQQEISQREKIHERCKNICPPKDTFDRTLLHIHDKSRTDLEQVPKIFMKPDFA
                     LDDSLTFNSVLPWSHFNTAGGKGNRDAASSKLLQEKLSHYLDIVEVNIAHQISLRSEA
                     FFHAMTSQHELQDYLKKTSQAVKMLRDKIAQIDKVMCEGSLQILRLALTRNNCVKVYN
                     KLKLMATVHQTQPTVQVLLSTSEFVGALDLIATTQEVLQQELQGVHSFRHLGSQLCEL
                     EKLIDKMMIAEFSTYSHSDLNRPLEGECQVLEEERLVSLVFGLLKQRKLNFLEIYGEE
                     MIITAKNIIKECVINKVAQVEEIDTDAVVKLADQMRMLNFPQWIDLLKDIFSKFTIFL
                     QRVKATLNVIHSVVLSVLDKNQRTRELEEVSQQRSAGKDNSLDTEVAYLTHEGLFISD
                     AFSEAEPASAAVDTTSQRNTSPHSEPCSSDSVSEPECTTDSSSSKEQTPASATLGGVD
                     IIVSEDMRLTDLELGKLASNIQELLCNASDVCHDRAVKFLMSRAKDGFLEKLNSTEFI
                     ALSRLMETFIVDTEQICGRKSTSLLGALQSQANKFVNRFHEERRTKLSLLLDNERWKQ
                     ADVPAEFQDLVDSIADGKIALPDKKPAATEDRKPADVLVVEGHQYAVVGTVLLLIRII
                     LEYCQCVDNIPSVTTDMLTRLTDLLKYFNSRSCQLVLGAGALQVVGLKTITTKNLALS
                     SRCLQLIVHYIPVIRAHFEARLPPKQWSLLRHFDHITKDYHDHIDEISSKLVAIMDSL
                     FDKLLSKYEVKAPVPSPCFRNICKQMTKMHEAIFDLLPEEQTQMLFLRINASYKFHLK
                     KQLSHLNVINDGGPQNGLVTADVAFYTGNLQALKGLKDLDLNMAEIWEQKR"
     exon            159..364
                     /gene="Vps54"
                     /gene_synonym="Vsp54"
                     /inference="alignment:Splign:2.1.0"
     exon            365..443
                     /gene="Vps54"
                     /gene_synonym="Vsp54"
                     /inference="alignment:Splign:2.1.0"
     exon            444..478
                     /gene="Vps54"
                     /gene_synonym="Vsp54"
                     /inference="alignment:Splign:2.1.0"
     exon            479..610
                     /gene="Vps54"
                     /gene_synonym="Vsp54"
                     /inference="alignment:Splign:2.1.0"
     exon            611..996
                     /gene="Vps54"
                     /gene_synonym="Vsp54"
                     /inference="alignment:Splign:2.1.0"
     exon            997..1123
                     /gene="Vps54"
                     /gene_synonym="Vsp54"
                     /inference="alignment:Splign:2.1.0"
     exon            1124..1231
                     /gene="Vps54"
                     /gene_synonym="Vsp54"
                     /inference="alignment:Splign:2.1.0"
     exon            1232..1287
                     /gene="Vps54"
                     /gene_synonym="Vsp54"
                     /inference="alignment:Splign:2.1.0"
     exon            1288..1384
                     /gene="Vps54"
                     /gene_synonym="Vsp54"
                     /inference="alignment:Splign:2.1.0"
     exon            1385..1725
                     /gene="Vps54"
                     /gene_synonym="Vsp54"
                     /inference="alignment:Splign:2.1.0"
     exon            1726..1855
                     /gene="Vps54"
                     /gene_synonym="Vsp54"
                     /inference="alignment:Splign:2.1.0"
     exon            1856..2037
                     /gene="Vps54"
                     /gene_synonym="Vsp54"
                     /inference="alignment:Splign:2.1.0"
     exon            2038..2150
                     /gene="Vps54"
                     /gene_synonym="Vsp54"
                     /inference="alignment:Splign:2.1.0"
     exon            2151..2214
                     /gene="Vps54"
                     /gene_synonym="Vsp54"
                     /inference="alignment:Splign:2.1.0"
     exon            2215..2320
                     /gene="Vps54"
                     /gene_synonym="Vsp54"
                     /inference="alignment:Splign:2.1.0"
     exon            2321..2408
                     /gene="Vps54"
                     /gene_synonym="Vsp54"
                     /inference="alignment:Splign:2.1.0"
     exon            2409..2611
                     /gene="Vps54"
                     /gene_synonym="Vsp54"
                     /inference="alignment:Splign:2.1.0"
     exon            2612..2719
                     /gene="Vps54"
                     /gene_synonym="Vsp54"
                     /inference="alignment:Splign:2.1.0"
     exon            2720..2814
                     /gene="Vps54"
                     /gene_synonym="Vsp54"
                     /inference="alignment:Splign:2.1.0"
     exon            2815..4174
                     /gene="Vps54"
                     /gene_synonym="Vsp54"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      
        1 agtcgagtgg tgattttatg caatggcttc aagccacagt tcttctccag tgcctcaagg
       61 aagcagcagt gatgttttct ttaaaaaaga ggtagatccg acaaagcacg tccgacctgt
      121 gcagtcactg ccagacgtgt gtcccaagga gcccacagtt acagatcaac atagatggac
      181 tgtgtatcat tccaaagtaa atctcccagc agcattaaat gatcctacgt tagcaaaaag
      241 agaatcggac ttcttcacaa aaacttgggg attggacttt gtggacactg aagtcatacc
      301 ttcactctac ctcccacaga tcagcaagga acattttata gcatatcagc aggagatctc
      361 tcagagagag aagattcatg agagatgcaa gaatatttgt cctcctaaag atacctttga
      421 caggactctt ttacatattc atgataaatc caggacagat ctggagcaag tacctaagat
      481 ttttatgaaa ccagattttg ccttggatga ttctttaact tttaattcag ttttaccatg
      541 gtctcatttt aatactgctg gtggaaaagg aaatcgtgat gcagcttctt ccaagttgct
      601 tcaagaaaag ctgagccatt atctggatat tgtggaagtc aacattgctc accagatctc
      661 tctgcgttca gaagcatttt ttcatgcaat gacctctcaa cacgaattgc aggactacct
      721 caagaaaact tcccaggctg taaaaatgct tcgagataaa attgcacaga ttgataaagt
      781 tatgtgtgaa ggatcactac agattttaag actggcactt accagaaata attgtgttaa
      841 agtatacaat aaactgaagt tgatggccac tgtacaccaa actcagccca cagtgcaggt
      901 gctgctgtcc acttctgagt tcgtcggcgc gctggactta atagcaacga ctcaagaggt
      961 tctgcagcag gagctgcagg gcgttcacag cttccggcat ttgggatcac agctttgtga
     1021 attagaaaag ctgattgata aaatgatgat tgcagagttt tctacttatt ctcatagtga
     1081 cttaaacaga ccgctggaag gggaatgcca agttttagaa gaggaaagat tagtatctct
     1141 agtgtttggg cttttgaaac aaagaaaact taatttttta gaaatctatg gtgaagaaat
     1201 gattattaca gcaaagaaca tcattaaaga gtgtgtgatt aataaagttg cacaagtaga
     1261 agaaatagac acagatgctg ttgtgaagct tgcagatcaa atgagaatgc tgaattttcc
     1321 ccagtggatt gatctgttaa aggatatttt ctctaagttt acaattttcc tacagagagt
     1381 taaggcaaca ctgaatgtca tccacagtgt tgttctctca gttcttgaca aaaaccaaag
     1441 gactagagaa ttggaggagg tctcacagca gaggagtgct gggaaggaca actccttgga
     1501 cacagaggtg gcttacctga cgcacgaagg cctgttcata agtgacgctt tcagtgaggc
     1561 tgagccagcg tccgcggcag tcgatactac ctctcagaga aacacgtctc cacacagcga
     1621 gccctgcagc agcgattcgg tatccgaacc agaatgtact actgattcct catccagcaa
     1681 ggagcagaca ccagcgtctg ccactctggg aggtgtagac atcatagtca gtgaagacat
     1741 gagattaact gacttggagc ttggaaaatt agcaagtaac atccaggaat tattgtgtaa
     1801 tgcttctgac gtatgccacg atcgagctgt caaatttctc atgtcaagag caaaggatgg
     1861 ttttcttgaa aagctgaatt ccacggagtt catagcactg tcgagattaa tggagacgtt
     1921 catcgtggac actgagcaga tttgtgggag gaagagcacc tcactgcttg gcgcccttca
     1981 gagccaagca aacaagtttg tgaacaggtt tcacgaggag aggcggacca agctcagcct
     2041 ccttttagac aatgagcgtt ggaagcaggc tgatgtgccc gcagaatttc aggatctagt
     2101 tgattctata gcagatggaa agatcgcttt acctgataaa aagccagcag ctacagaaga
     2161 caggaagccc gccgatgttc ttgttgtcga ggggcaccag tatgctgtcg tcggaactgt
     2221 cttgctgttg ataagaatca tccttgagta ttgccagtgt gtggataaca tcccctctgt
     2281 cactactgac atgctcactc gcctgacgga cttgctgaag tacttcaatt caagaagttg
     2341 ccagttagtt cttggagctg gtgctttgca agttgttgga ctaaaaacaa ttactacaaa
     2401 aaacttggcc ctctcttcac ggtgtttgca gctgattgtg cactacattc ctgtgatccg
     2461 ggctcacttt gaggcccggc tgccccccaa gcagtggagc ctgcttaggc atttcgatca
     2521 catcaccaag gattaccatg accatataga tgagatatca tctaagcttg tagccataat
     2581 ggatagccta tttgataagc tgttatcaaa gtatgaggtg aaagctcctg ttccttcccc
     2641 atgtttcagg aatatttgta agcaaatgac aaaaatgcat gaagctatat ttgatcttct
     2701 tcccgaagaa cagacgcaga tgttattttt aagaattaat gcaagttaca aattccactt
     2761 gaaaaaacag ttatcacact taaatgtaat aaatgatgga ggacctcaaa atgggttggt
     2821 cacagcagac gtagcttttt acactggaaa tcttcaagcc ttaaaaggcc ttaaagatct
     2881 ggatctaaat atggcggaga tctgggaaca gaagaggtga tgacagactg gagacctggg
     2941 tcgttcatct gaccatggga tgtttttgaa gaaaatctgg atgcctgctg tgctaggaac
     3001 tgaacctggg acccaaagtg aactaaggcg gggaagggaa gagaagatca gtgttgggaa
     3061 ctggattcag tgggatctac agagaatgct cttctgtgca tccttcagga aggagtagct
     3121 gatcaggtgt ctaccgcatt tttcattctc tctggaaaca gactcaggtt tctttggacc
     3181 aaatccaaaa gaacacatag ctgtaagaca gctgcagttg cctagaatgc tccgtaaact
     3241 ttatataaaa tgctctgcat ttctcccagt gcaatgaaat tcatatggtg tcccacctta
     3301 tttaatgatg gtacaattga acatattaaa tcttagtcaa cctctgtagg aagttttctc
     3361 tatgaaagta aagctatttg aaaaattatt tttttacaga tctttataaa aaataaacat
     3421 cttttgattg cttggattta gaaattcagt ttttgtttta gtgaccaatg tcaagtttca
     3481 ggttttgtgt gttgcatatt taactttttc actaccactg ttatgtcact gggtaaagcc
     3541 tcaaactgct aaatacatag aagactgact ataaagaata aagaatattt gcatttactt
     3601 atgcaactac taatttaaat actttccaga agtgggatac acaaagctag gtttaacaga
     3661 tctatttatt aaaatgccta tgaagggttt ggggtagcat tctgtgtttt ctttgctttt
     3721 tcatttctaa cagaggcaag gatacatagt catatgacat gcctacttat caattatcat
     3781 ttaacactta aagaacatga aatgtggccc tcttggattc ttgctttgaa gttacttttg
     3841 atatgtatat aaacaaagac cagggataaa cagaatattt aaaatacagg ctgctgtgtt
     3901 ggggccagaa atacaaggtc agtgaataag ctatttgaag acttttataa tgtctacttt
     3961 caacaccaga attggcagca ctctacaaat gaaagtgcct gtgtctcacc aagaatcctg
     4021 cctacctgtc ggagtgccta atcttgtggt gataatgtac aatgaaatag tcttgtgggt
     4081 tttttgtttt ctcaagaaga ttttttttta tcattataga ggtatgtcat tggttcttaa
     4141 actgtcaaaa ataaagatgt aaaaaatcac caga
//
