LOCUS       NM_019780               2757 bp    mRNA    linear   ROD 02-MAY-2024
DEFINITION  Mus musculus VPS29 retromer complex component (Vps29), transcript
            variant 2, mRNA.
ACCESSION   NM_019780
VERSION     NM_019780.2
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 2757)
  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 2757)
  AUTHORS   Follett,J., Norwood,S.J., Hamilton,N.A., Mohan,M., Kovtun,O.,
            Tay,S., Zhe,Y., Wood,S.A., Mellick,G.D., Silburn,P.A.,
            Collins,B.M., Bugarcic,A. and Teasdale,R.D.
  TITLE     The Vps35 D620N mutation linked to Parkinson's disease disrupts the
            cargo sorting function of retromer
  JOURNAL   Traffic 15 (2), 230-244 (2014)
   PUBMED   24152121
REFERENCE   3  (bases 1 to 2757)
  AUTHORS   Helfer,E., Harbour,M.E., Henriot,V., Lakisic,G., Sousa-Blin,C.,
            Volceanov,L., Seaman,M.N.J. and Gautreau,A.
  TITLE     Endosomal recruitment of the WASH complex: active sequences and
            mutations impairing interaction with the retromer
  JOURNAL   Biol Cell 105 (5), 191-207 (2013)
   PUBMED   23331060
REFERENCE   4  (bases 1 to 2757)
  AUTHORS   Kim,E., Lee,Y., Lee,H.J., Kim,J.S., Song,B.S., Huh,J.W., Lee,S.R.,
            Kim,S.U., Kim,S.H., Hong,Y., Shim,I. and Chang,K.T.
  TITLE     Implication of mouse Vps26b-Vps29-Vps35 retromer complex in
            sortilin trafficking
  JOURNAL   Biochem Biophys Res Commun 403 (2), 167-171 (2010)
   PUBMED   21040701
  REMARK    GeneRIF: These results suggest that mouse Vps26b-Vps29-Vps35
            retromer complex is implicated in the transport of sortilin from
            endosomes to the trans-Golgi network.
REFERENCE   5  (bases 1 to 2757)
  AUTHORS   Harbour,M.E., Breusegem,S.Y., Antrobus,R., Freeman,C., Reid,E. and
            Seaman,M.N.
  TITLE     The cargo-selective retromer complex is a recruiting hub for
            protein complexes that regulate endosomal tubule dynamics
  JOURNAL   J Cell Sci 123 (Pt 21), 3703-3717 (2010)
   PUBMED   20923837
REFERENCE   6  (bases 1 to 2757)
  AUTHORS   Kim,E., Lee,J.W., Baek,D.C., Lee,S.R., Kim,M.S., Kim,S.H.,
            Imakawa,K. and Chang,K.T.
  TITLE     Identification of novel retromer complexes in the mouse testis
  JOURNAL   Biochem Biophys Res Commun 375 (1), 16-21 (2008)
   PUBMED   18656452
REFERENCE   7  (bases 1 to 2757)
  AUTHORS   Collins,B.M., Skinner,C.F., Watson,P.J., Seaman,M.N. and Owen,D.J.
  TITLE     Vps29 has a phosphoesterase fold that acts as a protein interaction
            scaffold for retromer assembly
  JOURNAL   Nat Struct Mol Biol 12 (7), 594-602 (2005)
   PUBMED   15965486
  REMARK    GeneRIF: Vps29 has a phosphoesterase fold that acts as a protein
            interaction scaffold for retromer assembly.
REFERENCE   8  (bases 1 to 2757)
  AUTHORS   Edgar,A.J. and Polak,J.M.
  TITLE     Human homologues of yeast vacuolar protein sorting 29 and 35
  JOURNAL   Biochem Biophys Res Commun 277 (3), 622-630 (2000)
   PUBMED   11062004
REFERENCE   9  (bases 1 to 2757)
  AUTHORS   Wertz,K. and Herrmann,B.G.
  TITLE     Large-scale screen for genes involved in gonad development
  JOURNAL   Mech Dev 98 (1-2), 51-70 (2000)
   PUBMED   11044607
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            AC113285.9.
            
            On Dec 29, 2017 this sequence version replaced NM_019780.1.
            
            Transcript Variant: This variant (2) lacks an alternate in-frame
            exon compared to variant 1. The resulting isoform (2) has the same
            N- and C-termini but is shorter compared to isoform 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 :: AK036426.1, SRR11927932.1847941.1
                                           [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMN00849374, SAMN00849375
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            RefSeq Select criteria :: based on conservation, expression
            ##RefSeq-Attributes-END##
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-149               AC113285.9         220287-220435       c
            150-341             AC113285.9         214559-214750       c
            342-577             AC113285.9         212492-212727       c
            578-2757            AC113285.9         209779-211958       c
FEATURES             Location/Qualifiers
     source          1..2757
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="5"
                     /map="5 62.32 cM"
     gene            1..2757
                     /gene="Vps29"
                     /gene_synonym="2010015D08Rik; PEP11"
                     /note="VPS29 retromer complex component"
                     /db_xref="GeneID:56433"
                     /db_xref="MGI:MGI:1928344"
     exon            1..149
                     /gene="Vps29"
                     /gene_synonym="2010015D08Rik; PEP11"
                     /inference="alignment:Splign:2.1.0"
     exon            150..341
                     /gene="Vps29"
                     /gene_synonym="2010015D08Rik; PEP11"
                     /inference="alignment:Splign:2.1.0"
     exon            342..577
                     /gene="Vps29"
                     /gene_synonym="2010015D08Rik; PEP11"
                     /inference="alignment:Splign:2.1.0"
     exon            578..2757
                     /gene="Vps29"
                     /gene_synonym="2010015D08Rik; PEP11"
                     /inference="alignment:Splign:2.1.0"
     regulatory      752..757
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Vps29"
                     /gene_synonym="2010015D08Rik; PEP11"
                     /note="hexamer: ATTAAA"
     polyA_site      770
                     /gene="Vps29"
                     /gene_synonym="2010015D08Rik; PEP11"
                     /note="major polyA site"
     regulatory      1038..1043
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Vps29"
                     /gene_synonym="2010015D08Rik; PEP11"
                     /note="hexamer: AATAAA"
     polyA_site      1060
                     /gene="Vps29"
                     /gene_synonym="2010015D08Rik; PEP11"
                     /note="major polyA site"
     regulatory      2729..2734
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Vps29"
                     /gene_synonym="2010015D08Rik; PEP11"
                     /note="hexamer: AATAAA"
     polyA_site      2757
                     /gene="Vps29"
                     /gene_synonym="2010015D08Rik; PEP11"
ORIGIN      
        1 ggaaatgacc cttacgggcc cccgtaagac aggctcttgc caacttcgcg tctcattggt
       61 ggcggaagaa gtgggcgggt cgaccgagga gcctgaggaa gagggcggcg gcgttcgtgg
      121 tgattgaacg gagccctggt gacaggatgt tggtgttggt actaggagat ctgcacattc
      181 cgcaccggtg caacagcctg ccggccaagt ttaaaaaact cctggtgcca ggaaaaatcc
      241 agcacatcct ctgcaccggc aacctctgca ccaaggagag ctacgactat ctcaagactc
      301 tggctggcga cgtccacatc gtgagaggag acttcgatga gaatctgaat tacccagaac
      361 aaaaggttgt gactgtgggc cagttcaaga tcggtctgat ccacggacac caagttattc
      421 cgtggggaga catggctagc ttagccctgc tgcagaggca gtttgatgtg gacattctta
      481 tctcaggaca cacacacaaa tttgaagcat ttgagcatga aaataaattc tacattaacc
      541 caggttctgc cactggggcc tataatgcct tggaaacaaa cattattcca tcgtttgtgc
      601 tgatggacat ccaggcttct actgtggtca cttacgtcta tcaactaatt ggagatgacg
      661 tcaaagtaga acgaattgag tataaaaagt cgtaaagcca ggctggtctc caccacttat
      721 tttgtcctca tttcattgtt taaatcaaat aattaaacac ttaagaggca cacagttgta
      781 tcacttttat aatactttgc actaaaaagt cttctctgtt aatccatagt tgctctaaag
      841 cttcttgtaa actgttaaga atatatttag tttgcagtgt atggtttcta taagaagcag
      901 cccacccaac agtgcagggc cacgttagga agttgtcctt gtaaatagcc tcctagttgg
      961 tatttggact tcattacaaa actagcgcat gaagagaaag aatccagact ttgtgtgtat
     1021 gttttctctt ctctggtaat aaatgtgtac cttccattta gactttcttg aaaacctgtg
     1081 tttaatttaa aaaccataga cttgaaatct cagcactcaa gaggcagagg caggtggatc
     1141 tcttaagcat tttttgccaa tgctaggcca gccaaagcta cacaggagac cctggctcaa
     1201 aaacaaaaca aacacaagaa cataaaaatg agaagccaaa tgcaactgcc gatgtgctag
     1261 agtgaagggc acacaactgc agatgtgtta gagcagttat gatcctgtgt ctgagactcc
     1321 tttggggtgt aacaaccctt ttacaggggt cacctgagac tgttagaaaa tagatattag
     1381 atgggttgtg gtgcacgcct ttaatccctg tcgggaggca gtggcaggtg gatctattga
     1441 gttcaaagcc agcctggtct accgaataag ttcctggaca cacagggcta cacagacaaa
     1501 cttctgcctc ttgagtgttg ggattaaagg tgtggctacc actgtccaac tcaacagcga
     1561 ttcatttttt ttttttaaag attcatttat ttcatgtatg tgagtgcact gtagctgtct
     1621 tcagacacac cagaagaggg catcagatct cattacggat ggttgtgagc caccatgtgg
     1681 ttgctgggga ttgaactcag ggcctctgga agagcagcca gtgctcttaa cggctgagtc
     1741 atctctccag ccctcagcaa tgattcttaa gccttgttgc acgagtgttt gtttggattt
     1801 aacaattttt tcagacagta tcttactata tacctgaatt cacagtgtag ctcaggctgg
     1861 cctggaactc acagaaatct gtgtctgtct ttgcctccca agcactagga ttaaaggtgt
     1921 atatcactat gcctatctta gccacaggtt tttaatttat atttactagc aaatattgac
     1981 caatctgctt ttgaaggtga gatctgcaaa tactattctg tgtaaatatt ttccagtttc
     2041 ctggtttaat caagaaaaac tttctggaat aaccaacaat tacatgtaca cgcacacatt
     2101 tacaaagtta taaactataa atttataaac taaaaggaga aataatatat ttgccagact
     2161 cggggctgga gagatgcctc agtggcagtt taagagcact gcctgctttc ccaggatggg
     2221 gttcaattcc cagcatccac atggcagcta tactgtctat aactccagcc ccataagttc
     2281 caggaccttt acacagacag acatgcaggc aaagcaccaa tgcacataaa ataaagataa
     2341 tttaaaattc agttttatgt tgcaagtaaa attttaattg ttctagctag aaacaagcat
     2401 acattacaca ttaacacaga aatatatcag acgaaggcgg ctattataaa tttctcaaca
     2461 accaaaataa cataccgtta ctactagtac tatcccatac atggtccact cttccctgtg
     2521 cactcagcat gtggatgtta gctgatggct gagcttggtg tggaggacta gaccgtcagg
     2581 ctggcgtgag ctgggccttg ttcttggatg gacatggact gcatgcactt attcagcaga
     2641 tcctcctcct gtgtttcttc actcgggcat gactgagaat cattagaagg aactacaggg
     2701 aagataagtg tttataatgc attctggaaa taaaattctt taattttatt actatta
//
