LOCUS       NM_001355509            1792 bp    mRNA    linear   ROD 02-MAY-2024
DEFINITION  Mus musculus ubiquitin-associated protein 1 (Ubap1), transcript
            variant 4, mRNA.
ACCESSION   NM_001355509
VERSION     NM_001355509.1
KEYWORDS    RefSeq.
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 1792)
  AUTHORS   Lu,D., Zhi,Y., Su,H., Lin,X., Lin,J., Shi,Y., Yi,W., Hong,C.,
            Zhang,T., Fu,Z., Chen,L.Y., Zhao,Z., Li,R., Xu,Z., Chen,W., Wang,N.
            and Xu,D.
  TITLE     ESCRT-I protein UBAP1 controls ventricular expansion and cortical
            neurogenesis via modulating adherens junctions of radial glial
            cells
  JOURNAL   Cell Rep 43 (3), 113818 (2024)
   PUBMED   38402586
REFERENCE   2  (bases 1 to 1792)
  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   3  (bases 1 to 1792)
  AUTHORS   Shimozono,K., Nan,H., Hata,T., Saito,K., Kim,Y.J., Nagatomo,H.,
            Ohtsuka,T., Koizumi,S. and Takiyama,Y.
  TITLE     Ubap1 knock-in mice reproduced the phenotype of SPG80
  JOURNAL   J Hum Genet 67 (12), 679-686 (2022)
   PUBMED   35962060
  REMARK    GeneRIF: Ubap1 knock-in mice reproduced the phenotype of SPG80.
REFERENCE   4  (bases 1 to 1792)
  AUTHORS   Nan,H., Ichinose,Y., Tanaka,M., Koh,K., Ishiura,H., Mitsui,J.,
            Mizukami,H., Morimoto,M., Hamada,S., Ohtsuka,T., Tsuji,S. and
            Takiyama,Y.
  TITLE     UBAP1 mutations cause juvenile-onset hereditary spastic paraplegias
            (SPG80) and impair UBAP1 targeting to endosomes
  JOURNAL   J Hum Genet 64 (11), 1055-1065 (2019)
   PUBMED   31515522
  REMARK    GeneRIF: Exome sequencing of genomic DNA from patients in four
            families was carried out, followed by Sanger sequencing of the
            UBAP1 gene. A mouse homolog of one UBAP1 frameshift mutation
            carried by one of the patients was created as a disease model.
            Functional properties of the UBAP1 wild type and UBAP1-mutant in
            mouse hippocampus neurons were examined.
REFERENCE   5  (bases 1 to 1792)
  AUTHORS   Lin,X., Su,H.Z., Dong,E.L., Lin,X.H., Zhao,M., Yang,C., Wang,C.,
            Wang,J., Chen,Y.J., Yu,H., Xu,J., Ma,L.X., Xiong,Z.Q., Wang,N. and
            Chen,W.J.
  TITLE     Stop-gain mutations in UBAP1 cause pure autosomal-dominant spastic
            paraplegia
  JOURNAL   Brain 142 (8), 2238-2252 (2019)
   PUBMED   31203368
REFERENCE   6  (bases 1 to 1792)
  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   7  (bases 1 to 1792)
  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   8  (bases 1 to 1792)
  AUTHORS   Qian,J., Yang,J., Zhang,X., Zhang,B., Wang,J., Zhou,M., Tang,K.,
            Li,W., Zeng,Z., Zhao,X., Shen,S. and Li,G.
  TITLE     Isolation and characterization of a novel cDNA, UBAP1, derived from
            the tumor suppressor locus in human chromosome 9p21-22
  JOURNAL   J Cancer Res Clin Oncol 127 (10), 613-618 (2001)
   PUBMED   11599797
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            BY127131.1, CJ152064.1 and BC065996.1.
            
            Transcript Variant: This variant (4) lacks an alternate in-frame
            exon in the 5' coding region compared to variant 1. It encodes
            isoform 3, which is shorter than isoform 1.
            
            ##Evidence-Data-START##
            Transcript exon combination :: SRR1660815.211877.1,
                                           SRR1660815.518855.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMN00849374, SAMN00849375
                                           [ECO:0000348]
            ##Evidence-Data-END##
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-39                BY127131.1         3-41
            40-460              CJ152064.1         1-421
            461-1792            BC065996.1         1333-2664
FEATURES             Location/Qualifiers
     source          1..1792
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="4"
                     /map="4 21.43 cM"
     gene            1..1792
                     /gene="Ubap1"
                     /gene_synonym="2700092A01Rik; NAG20; Ubap; UBAP-1"
                     /note="ubiquitin-associated protein 1"
                     /db_xref="GeneID:67123"
                     /db_xref="MGI:MGI:2149543"
     exon            1..236
                     /gene="Ubap1"
                     /gene_synonym="2700092A01Rik; NAG20; Ubap; UBAP-1"
                     /inference="alignment:Splign:2.1.0"
     exon            237..277
                     /gene="Ubap1"
                     /gene_synonym="2700092A01Rik; NAG20; Ubap; UBAP-1"
                     /inference="alignment:Splign:2.1.0"
     CDS             244..828
                     /gene="Ubap1"
                     /gene_synonym="2700092A01Rik; NAG20; Ubap; UBAP-1"
                     /note="isoform 3 is encoded by transcript variant 4"
                     /codon_start=1
                     /product="ubiquitin-associated protein 1 isoform 3"
                     /protein_id="NP_001342438.1"
                     /db_xref="GeneID:67123"
                     /db_xref="MGI:MGI:2149543"
                     /translation="MASKKLGTDVHGTFSYLDDVPFKIGDKFKTPAKVGLPIGFSLPD
                     CLQVVREMQVTPLNFSVSQVPNMPSCPQAYLELQALSPSERQCVETVVNMGYSYDCVL
                     RAMRKKGENIEQILDYLFAHGQLCEKGFDPLLVEEALEMHQCSEEKMMEFLQLMSKFK
                     EMGFELKDIKEVLLLHNNDQDNALEDLMARAGAS"
     exon            278..402
                     /gene="Ubap1"
                     /gene_synonym="2700092A01Rik; NAG20; Ubap; UBAP-1"
                     /inference="alignment:Splign:2.1.0"
     exon            403..585
                     /gene="Ubap1"
                     /gene_synonym="2700092A01Rik; NAG20; Ubap; UBAP-1"
                     /inference="alignment:Splign:2.1.0"
     exon            586..687
                     /gene="Ubap1"
                     /gene_synonym="2700092A01Rik; NAG20; Ubap; UBAP-1"
                     /inference="alignment:Splign:2.1.0"
     exon            688..1773
                     /gene="Ubap1"
                     /gene_synonym="2700092A01Rik; NAG20; Ubap; UBAP-1"
                     /inference="alignment:Splign:2.1.0"
     regulatory      1755..1760
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Ubap1"
                     /gene_synonym="2700092A01Rik; NAG20; Ubap; UBAP-1"
                     /note="hexamer: AATAAA"
     polyA_site      1773
                     /gene="Ubap1"
                     /gene_synonym="2700092A01Rik; NAG20; Ubap; UBAP-1"
                     /note="major polyA site"
ORIGIN      
        1 tgatgtcaga cgcctaaagg ggcggagcgt cgaggggaag gaggagggaa gtaggccttc
       61 aacatggcgg ctgtggtact ggtggtggct acggtgacgg tctggctcgg ggcgggtaga
      121 gttggaagag gtggtgtttg ctctccctag gggcagcggg agcccagcgg agactgagcc
      181 cgggaggccg ggcggcgcca gcacctttca gctttcggga cagcagcggc attcaggttc
      241 taaatggctt ctaagaagtt ggggacagat gttcatggga ctttcagtta ccttgacgat
      301 gtcccattta agataggaga caaattcaaa acaccagcga aagtgggtct gcctattggc
      361 ttctccttgc ctgactgctt acaggttgtc agagagatgc aggtaacccc tctaaatttc
      421 tcagtgtcac aagtgcccaa catgcctagc tgtccccagg cctatttgga actgcaggca
      481 ctgtctccga gtgagcggca atgtgtagag acagtagtca acatgggcta ctcatatgat
      541 tgtgtcctga gagccatgag aaagaaagga gagaatattg agcagattct cgactatctc
      601 tttgcacacg gacagctttg tgagaagggt tttgaccctc ttttagtgga agaggctctg
      661 gaaatgcacc agtgttcaga agaaaagatg atggagtttc ttcagttaat gagcaaattt
      721 aaggaaatgg gctttgaact gaaagacatt aaggaagttt tgctattaca caacaatgac
      781 caggacaatg ctctggaaga cctcatggcc cgggctggag ccagctgaga cctggccctg
      841 ctacggccct gccacagcac caccattccc caaggaggct ctgcacagct cacttgtggg
      901 gaagacggga catgcttcca gattttcttt gggggttaga aggtcggatg tggagttgac
      961 acttgttagt ctctgtgagc ccaggcctga gctgggggaa agtaggaaga tttgggcata
     1021 tatgctctct attggttcct tccatattaa acatacctgt gttttgagaa gtgtccttcc
     1081 cactttgggc tttcagaagg aatacttggt tctttctggg gtctctaatg ttctcagcca
     1141 aaacctggcc tggctaccaa gaagagtggg aagacaggag gagcagactg ctgctgtttt
     1201 ggggctagat cctttcctct cctctctgct gcaccactgt cagactgggc tctaacccaa
     1261 gtggaatgca actgagaggg tcttcctggg cccgccttcc ccgacagccc tagtgttaca
     1321 ctggttctgg agtgtctctg cggtacaaag atgcactttt cttcatgggg caaagtctgc
     1381 ctcttctgcc aggcagttcc catttgcccc tgtccagact gtttcttttg gcttagacca
     1441 taatcctctg ctgcccgggg cattggagcc cctgtgctag gaagctgtca gttttgagta
     1501 tcattggccc tttccagcac atgggtgaga aaacaggcca cgacttgtca ctcagcacta
     1561 acccccagtt cttgaacagc ctcctccagc cctgctttag gatgacacaa tgaataacac
     1621 ctaggcatag aaaccagtct ctttggtttg tttgtattat gttctacaat attaaagatc
     1681 taaatacaaa ggatataata cagtcttgaa tctaaagtaa tttgctaact attttgattc
     1741 ttcagagaac tactaataaa aatctaaaag gtaaaaaaaa aaaaaaaaaa aa
//
