LOCUS       NM_013933               1658 bp    mRNA    linear   ROD 04-JUN-2024
DEFINITION  Mus musculus vesicle-associated membrane protein, associated
            protein A (Vapa), transcript variant 2, mRNA.
ACCESSION   NM_013933
VERSION     NM_013933.3
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 1658)
  AUTHORS   Weber-Boyvat,M., Trimbuch,T., Shah,S., Jantti,J., Olkkonen,V.M. and
            Rosenmund,C.
  TITLE     ORP/Osh mediate cross-talk between ER-plasma membrane contact site
            components and plasma membrane SNAREs
  JOURNAL   Cell Mol Life Sci 78 (4), 1689-1708 (2021)
   PUBMED   32734583
  REMARK    GeneRIF: ORP/Osh mediate cross-talk between ER-plasma membrane
            contact site components and plasma membrane SNAREs.
REFERENCE   2  (bases 1 to 1658)
  AUTHORS   Leca,I., Phillips,A.W., Hofer,I., Landler,L., Ushakova,L.,
            Cushion,T.D., Durnberger,G., Stejskal,K., Mechtler,K. and
            Keays,D.A.
  TITLE     A proteomic survey of microtubule-associated proteins in a R402H
            TUBA1A mutant mouse
  JOURNAL   PLoS Genet 16 (11), e1009104 (2020)
   PUBMED   33137126
  REMARK    Publication Status: Online-Only
REFERENCE   3  (bases 1 to 1658)
  AUTHORS   Nthiga,T.M., Kumar Shrestha,B., Sjottem,E., Bruun,J.A., Bowitz
            Larsen,K., Bhujabal,Z., Lamark,T. and Johansen,T.
  TITLE     CALCOCO1 acts with VAMP-associated proteins to mediate ER-phagy
  JOURNAL   EMBO J 39 (15), e103649 (2020)
   PUBMED   32525583
  REMARK    GeneRIF: CALCOCO1 acts with VAMP-associated proteins to mediate
            ER-phagy.
REFERENCE   4  (bases 1 to 1658)
  AUTHORS   Kirmiz,M., Gillies,T.E., Dickson,E.J. and Trimmer,J.S.
  TITLE     Neuronal ER-plasma membrane junctions organized by Kv2-VAP pairing
            recruit Nir proteins and affect phosphoinositide homeostasis
  JOURNAL   J Biol Chem 294 (47), 17735-17757 (2019)
   PUBMED   31594866
  REMARK    GeneRIF: the VAP-interacting membrane-associated
            phosphatidylinositol (PtdIns) transfer proteins PYK2 N-terminal
            domain-interacting receptor 2 (Nir2) and Nir3 specifically
            associate with Kv2.1 complexes.
REFERENCE   5  (bases 1 to 1658)
  AUTHORS   Kirmiz,M., Vierra,N.C., Palacio,S. and Trimmer,J.S.
  TITLE     Identification of VAPA and VAPB as Kv2 Channel-Interacting Proteins
            Defining Endoplasmic Reticulum-Plasma Membrane Junctions in
            Mammalian Brain Neurons
  JOURNAL   J Neurosci 38 (35), 7562-7584 (2018)
   PUBMED   30012696
  REMARK    GeneRIF: There was colocalization of Kv2.1 and Kv2.2 with
            endogenous VAPA at ER-PM junctions in mouse brain neurons.
            Expression of Kv2.1 recruits VAPA to ER-PM junctions. Knocking out
            VAPA expression disrupts Kv2.1 clustering.The domains of VAPs and
            Kv2.1 necessary and sufficient for their association at ER-PM
            junctions were identified.
REFERENCE   6  (bases 1 to 1658)
  AUTHORS   Kesavan,G., Sand,F.W., Greiner,T.U., Johansson,J.K., Kobberup,S.,
            Wu,X., Brakebusch,C. and Semb,H.
  TITLE     Cdc42-mediated tubulogenesis controls cell specification
  JOURNAL   Cell 139 (4), 791-801 (2009)
   PUBMED   19914171
REFERENCE   7  (bases 1 to 1658)
  AUTHORS   Cobellis,G., Nicolaus,G., Iovino,M., Romito,A., Marra,E.,
            Barbarisi,M., Sardiello,M., Di Giorgio,F.P., Iovino,N., Zollo,M.,
            Ballabio,A. and Cortese,R.
  TITLE     Tagging genes with cassette-exchange sites
  JOURNAL   Nucleic Acids Res 33 (4), e44 (2005)
   PUBMED   15741177
  REMARK    Publication Status: Online-Only
REFERENCE   8  (bases 1 to 1658)
  AUTHORS   Wyles,J.P. and Ridgway,N.D.
  TITLE     VAMP-associated protein-A regulates partitioning of
            oxysterol-binding protein-related protein-9 between the endoplasmic
            reticulum and Golgi apparatus
  JOURNAL   Exp Cell Res 297 (2), 533-547 (2004)
   PUBMED   15212954
  REMARK    GeneRIF: Vapa regulates partitioning of Osbp between the
            endoplasmic retiuculum and the Golgi apparatus.
REFERENCE   9  (bases 1 to 1658)
  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   10 (bases 1 to 1658)
  AUTHORS   Skehel,P.A., Fabian-Fine,R. and Kandel,E.R.
  TITLE     Mouse VAP33 is associated with the endoplasmic reticulum and
            microtubules
  JOURNAL   Proc Natl Acad Sci U S A 97 (3), 1101-1106 (2000)
   PUBMED   10655491
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            AK167381.1 and BM899396.1.
            
            On Dec 9, 2009 this sequence version replaced NM_013933.2.
            
            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 :: AF157497.1, BC003866.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMN01164131, SAMN01164134
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            RefSeq Select criteria :: based on conservation, expression
            ##RefSeq-Attributes-END##
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-1640              AK167381.1         2-1641
            1641-1658           BM899396.1         1-18                c
FEATURES             Location/Qualifiers
     source          1..1658
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="17"
                     /map="17 34.9 cM"
     gene            1..1658
                     /gene="Vapa"
                     /gene_synonym="33kDa; VAMP-A; VAP-33; VAP-A; VAP33"
                     /note="vesicle-associated membrane protein, associated
                     protein A"
                     /db_xref="GeneID:30960"
                     /db_xref="MGI:MGI:1353561"
     exon            1..336
                     /gene="Vapa"
                     /gene_synonym="33kDa; VAMP-A; VAP-33; VAP-A; VAP33"
                     /inference="alignment:Splign:2.1.0"
     CDS             258..1007
                     /gene="Vapa"
                     /gene_synonym="33kDa; VAMP-A; VAP-33; VAP-A; VAP33"
                     /note="isoform 2 is encoded by transcript variant 2;
                     VAMP-associated protein A; 33 kDa VAMP-associated protein;
                     synaptobrevin-associated protein of 33kDa"
                     /codon_start=1
                     /product="vesicle-associated membrane protein-associated
                     protein A isoform 2"
                     /protein_id="NP_038961.2"
                     /db_xref="CCDS:CCDS37677.1"
                     /db_xref="GeneID:30960"
                     /db_xref="MGI:MGI:1353561"
                     /translation="MASASGAMAKHEQILVLDPPSDLKFKGPFTDVVTTNLKLQNPSD
                     RKVCFKVKTTAPRRYCVRPNSGIIDPGSIVTVSVMLQPFDYDPNEKSKHKFMVQTIFA
                     PPNISDMEAVWKEAKPDELMDSKLRCVFEMPNENDKLNDMEPSKAVPLNASKQDGPLP
                     KPHSVSLNDTETRKLMEECKRLQGEMMKLSEENRHLRDEGLRLRKVAHSDKPGSTSAV
                     SFRDNVTSPLPSLLVVIAAIFIGFFLGKFIL"
     exon            337..489
                     /gene="Vapa"
                     /gene_synonym="33kDa; VAMP-A; VAP-33; VAP-A; VAP33"
                     /inference="alignment:Splign:2.1.0"
     exon            490..593
                     /gene="Vapa"
                     /gene_synonym="33kDa; VAMP-A; VAP-33; VAP-A; VAP33"
                     /inference="alignment:Splign:2.1.0"
     exon            594..674
                     /gene="Vapa"
                     /gene_synonym="33kDa; VAMP-A; VAP-33; VAP-A; VAP33"
                     /inference="alignment:Splign:2.1.0"
     exon            675..848
                     /gene="Vapa"
                     /gene_synonym="33kDa; VAMP-A; VAP-33; VAP-A; VAP33"
                     /inference="alignment:Splign:2.1.0"
     exon            849..1643
                     /gene="Vapa"
                     /gene_synonym="33kDa; VAMP-A; VAP-33; VAP-A; VAP33"
                     /inference="alignment:Splign:2.1.0"
     regulatory      1613..1618
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Vapa"
                     /gene_synonym="33kDa; VAMP-A; VAP-33; VAP-A; VAP33"
                     /note="hexamer: AATAAA"
     polyA_site      1643
                     /gene="Vapa"
                     /gene_synonym="33kDa; VAMP-A; VAP-33; VAP-A; VAP33"
                     /note="major polyA site"
ORIGIN      
        1 acgtggggcg ccgaggatcg cagtgcgcgt ggccgcggcg gctggtgtgg ggttgagtca
       61 gttgtgacac ccggagctgc tgagcggaca ggctgccctc gggacccccg cggcccggca
      121 gcaggcgcgg agcttcggga atcgtgagcc tggccccgtc ctagagctcc gcggagccgg
      181 cgccgccacc gtcccctcgc ccccgccagc gaaccgccgc cgcgggcgcg cccccgctct
      241 gcgctgcgct gtctcctatg gcgtccgcct ccggggccat ggcgaagcac gagcagatcc
      301 tggtcctcga ccctccttca gacctcaaat tcaaaggccc cttcacagat gtagtcacta
      361 caaatcttaa attgcaaaat ccatcggata gaaaagtgtg tttcaaagtg aagactacag
      421 cacctcgccg gtactgtgtg cggcccaaca gtgggattat tgacccgggg tcaattgtga
      481 ctgtttcagt aatgctgcaa ccctttgatt atgatccgaa tgaaaagagt aaacataagt
      541 tcatggtaca gacaattttt gctccaccaa acatttcaga tatggaagct gtgtggaaag
      601 aagcaaaacc tgatgaatta atggattcta aattgagatg tgtgtttgaa atgccgaatg
      661 aaaatgataa gctgaatgat atggaaccta gcaaagctgt tccactgaat gcatccaaac
      721 aagacggacc cctgccaaaa ccacacagtg tttcactcaa tgatacggaa acaaggaaac
      781 tgatggaaga gtgcaagcga ctccagggag aaatgatgaa gctctcagaa gaaaaccgac
      841 acctgagaga tgaaggccta aggctcagaa aggtagcaca ttcggataaa cctggatcca
      901 cctcagccgt gtccttcaga gataatgtca ccagtcctct tccttctctt ctggttgtaa
      961 ttgcagccat tttcattgga ttctttctag ggaaattcat cttgtagagt gaagcatgca
     1021 gagtgctgtt tctttttttt ttttttttct tctctcgacc agaaaaagat ttgtttacct
     1081 accatttcat tggtagtatg gcccgcggtg accatggccc gcggtgacca attttttttg
     1141 tgtgtacagc gtcatatagg ctttgccttt aatgatctct tacggttaga aaacacaata
     1201 aaaacaaact gttcggctac tggacaaatt gtatattatc agatcatcac tagcagatgt
     1261 cagttgcaca ttcagtcctt tatgaaattc ataaataaag aattgttctt tctttgtggt
     1321 tttaataaga gttcaagaat tgttcagtct tgtaaatgtt attttaataa ttcctttaaa
     1381 ttttatctgt tgctgttacc tcttgaaata tgatttattt agattgctaa tcccactcat
     1441 tcaggaaatg ccaagaggtt ttctgtgggg gaaatggtgc ctcttactgt gtaaattttc
     1501 tcctttacct ttgctaatat catggcagaa tttttcttat cccttgtgag gcagtttgtt
     1561 gactgagttt ttcatcctta caatcctgtc ccatggtatt taacataaaa aaaataaaac
     1621 tgttaacaga ttcttgctcg ataaaaaaaa aaaaaaaa
//
