LOCUS       NM_026371               1777 bp    mRNA    linear   ROD 30-APR-2024
DEFINITION  Mus musculus BLOC-1 related complex subunit 5 (Borcs5), transcript
            variant 2, mRNA.
ACCESSION   NM_026371
VERSION     NM_026371.3
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 1777)
  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 1777)
  AUTHORS   De Pace,R., Britt,D.J., Mercurio,J., Foster,A.M., Djavaherian,L.,
            Hoffmann,V., Abebe,D. and Bonifacino,J.S.
  TITLE     Synaptic Vesicle Precursors and Lysosomes Are Transported by
            Different Mechanisms in the Axon of Mammalian Neurons
  JOURNAL   Cell Rep 31 (11), 107775 (2020)
   PUBMED   32553155
REFERENCE   3  (bases 1 to 1777)
  AUTHORS   Yordanov,T.E., Hipolito,V.E.B., Liebscher,G., Vogel,G.F.,
            Stasyk,T., Herrmann,C., Geley,S., Teis,D., Botelho,R.J., Hess,M.W.
            and Huber,L.A.
  TITLE     Biogenesis of lysosome-related organelles complex-1 (BORC)
            regulates late endosomal/lysosomal size through PIKfyve-dependent
            phosphatidylinositol-3,5-bisphosphate
  JOURNAL   Traffic 20 (9), 674-696 (2019)
   PUBMED   31314175
REFERENCE   4  (bases 1 to 1777)
  AUTHORS   Pu,J., Schindler,C., Jia,R., Jarnik,M., Backlund,P. and
            Bonifacino,J.S.
  TITLE     BORC, a multisubunit complex that regulates lysosome positioning
  JOURNAL   Dev Cell 33 (2), 176-188 (2015)
   PUBMED   25898167
REFERENCE   5  (bases 1 to 1777)
  AUTHORS   Evsikov,A.V., Graber,J.H., Brockman,J.M., Hampl,A., Holbrook,A.E.,
            Singh,P., Eppig,J.J., Solter,D. and Knowles,B.B.
  TITLE     Cracking the egg: molecular dynamics and evolutionary aspects of
            the transition from the fully grown oocyte to embryo
  JOURNAL   Genes Dev 20 (19), 2713-2727 (2006)
   PUBMED   17015433
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            BY077254.1, AK151342.1 and AI842379.1.
            
            On Dec 19, 2009 this sequence version replaced NM_026371.2.
            
            Transcript Variant: This variant (2) differs in the 5' UTR and
            coding sequence compared to variant 1. The resulting isoform (2)
            has a shorter and distinct N-terminus compared to isoform 1.
            
            ##Evidence-Data-START##
            Transcript exon combination :: BC023059.1, AK018019.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMN00849374, SAMN00849375
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            RefSeq Select criteria :: based on expression
            ##RefSeq-Attributes-END##
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-135               BY077254.1         4-138
            136-1745            AK151342.1         2-1611
            1746-1777           AI842379.1         1-32                c
FEATURES             Location/Qualifiers
     source          1..1777
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="6"
                     /map="6 65.77 cM"
     gene            1..1777
                     /gene="Borcs5"
                     /gene_synonym="5830457J20Rik; Loh12cr1"
                     /note="BLOC-1 related complex subunit 5"
                     /db_xref="GeneID:67774"
                     /db_xref="MGI:MGI:1915024"
     exon            1..318
                     /gene="Borcs5"
                     /gene_synonym="5830457J20Rik; Loh12cr1"
                     /inference="alignment:Splign:2.1.0"
     CDS             261..848
                     /gene="Borcs5"
                     /gene_synonym="5830457J20Rik; Loh12cr1"
                     /note="isoform 2 is encoded by transcript variant 2; loss
                     of heterozygosity 12 chromosomal region 1 protein homolog;
                     loss of heterozygosity, 12, chromosomal region 1 homolog"
                     /codon_start=1
                     /product="BLOC-1-related complex subunit 5 isoform 2"
                     /protein_id="NP_080647.2"
                     /db_xref="CCDS:CCDS20638.1"
                     /db_xref="GeneID:67774"
                     /db_xref="MGI:MGI:1915024"
                     /translation="MGSEQSAEAESRPGDLNASVTPSPAKHRAKMDDIVVVAQGSQAS
                     RNVSNDPDVIKLQEIPTFQPLLKGLLSGQTSPTNAKLEKLDSQQVLQLCLRYQDHLHQ
                     CAEAVAFDQNALVKRIKEMDLSVETLFCFMQERQKRYAKYAEQIQKVNEMSAILRRIQ
                     MGIDQTVPLMERLNSMLPEAERLEPFSMKPERERH"
     exon            319..462
                     /gene="Borcs5"
                     /gene_synonym="5830457J20Rik; Loh12cr1"
                     /inference="alignment:Splign:2.1.0"
     exon            463..620
                     /gene="Borcs5"
                     /gene_synonym="5830457J20Rik; Loh12cr1"
                     /inference="alignment:Splign:2.1.0"
     exon            621..1761
                     /gene="Borcs5"
                     /gene_synonym="5830457J20Rik; Loh12cr1"
                     /inference="alignment:Splign:2.1.0"
     regulatory      1728..1733
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Borcs5"
                     /gene_synonym="5830457J20Rik; Loh12cr1"
                     /note="hexamer: ATTAAA"
     polyA_site      1747
                     /gene="Borcs5"
                     /gene_synonym="5830457J20Rik; Loh12cr1"
                     /note="major polyA site"
ORIGIN      
        1 gacctccaaa cccggaactg aaggccgcgc attgccggcc cggccaatcg gcgtcccgga
       61 aggagcgagc tgaagccacc gagccagtga atgacagcag cgccgcccgc cggtcgcggc
      121 tgcagccctg ccggcgtccc gagcctcctg tcaacgcgag cggcgtgctt tccagcggcg
      181 cctctccaag tgtctgtggc ccagcggggt ctccccgctc tccctagcct ctgccccggt
      241 gtccctccgc tgcaggggcc atgggcagcg agcagagcgc ggaggccgag agccgccccg
      301 gcgatctgaa cgcctcagtg actccatctc cggctaaaca tcgggccaag atggacgata
      361 tcgtggtggt agctcagggc tctcaggcct cacggaatgt cagcaatgac cccgatgtca
      421 tcaagctaca agagattcca accttccagc cccttttaaa agggctcttg agtggacaga
      481 cttccccaac caatgccaaa ctggagaagc tagactctca gcaggtgctg cagctctgcc
      541 tccggtacca ggatcacctg caccagtgcg cagaggcagt ggctttcgat cagaatgctc
      601 tagtcaagcg aatcaaagag atggatctgt ccgtggaaac cctcttttgc ttcatgcagg
      661 agcgccagaa aagatacgcc aagtatgcag agcagatcca gaaggtgaat gagatgtcgg
      721 ccatcctgcg ccgcatccag atgggcatag accagacggt gccactgatg gagcggctga
      781 acagcatgct gccagaggct gagcgcctgg agcccttcag catgaagcct gagcgggagc
      841 ggcactagca ggcgcctgcc tgcgcacaca gctcctccag ccttcccctg ggccctgacg
      901 tttgcctaga tgtgtctgac ccacatggac ttcccagtgt ggtagttctt gagaaccgaa
      961 gttgggacag ttgaatttcc agaaatcctg taaagaactt tgcatcaaga gttattttta
     1021 ttttgctccg attgtttgaa ttaaaagtgt aagtagtcta gctactgcag tgaaactgtg
     1081 gagaaaatgc taaggacctg ttcactttgg cgcctcgtga gacttgacgc aggctctctg
     1141 atctgtggct gtaaacataa gtgctgactg gctccagcta ctgttgctat gcattggccc
     1201 ccatcacatc aaggaggtat ctggcactgt cttcctgccc tgccagaaca ccatcttttt
     1261 gtttttccgg taccacgccc cttttgtggg tcactggaaa ctgaagactg ccgtcatgca
     1321 ctcatgaagg tgtttcccat tagaaccgct tttccattca gagctcaggc ttctgccagc
     1381 ctggcagacc ttggcttcca taacaaggtt tgcactgaca cttgctccca ccctctctca
     1441 tgcgagaccc ttggccctcc actgatgtgc caggaacact aaagaggcga cggagcctct
     1501 gcccgccctg ccgactgtag ggcgtgaagc tggggaaaga gctgcccgtc acaggactgc
     1561 tgtggaagga agagacgcaa taagtgcagg ggacgggccc gaagataaga gctgggtctg
     1621 aggggctgtc agggctggga gtctacagcc tccccttcgt ccctgtgttc ctccagaatc
     1681 cagagagatt ctgtcaggtg ttagaagagc ctcggtgttt ttataagatt aaaatgaatc
     1741 tgattaattt attgtgtagc aaaaaaaaaa aaaaaaa
//
