LOCUS       NM_027815               3103 bp    mRNA    linear   ROD 31-DEC-2024
DEFINITION  Mus musculus VPS35 endosomal protein sorting factor like (Vps35l),
            mRNA.
ACCESSION   NM_027815 XM_914473
VERSION     NM_027815.5
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 3103)
  AUTHORS   Vos,D.Y., Wijers,M., Smit,M., Huijkman,N., Kloosterhuis,N.J.,
            Wolters,J.C., Tissink,J.J., Pronk,A.C.M., Kooijman,S.,
            Rensen,P.C.N., Kuivenhoven,J.A. and van de Sluis,B.
  TITLE     Cargo-Specific Role for Retriever Subunit VPS26C in Hepatocyte
            Lipoprotein Receptor Recycling to Control Postprandial
            Triglyceride-Rich Lipoproteins
  JOURNAL   Arterioscler Thromb Vasc Biol 43 (1), e29-e45 (2023)
   PUBMED   36353989
REFERENCE   2  (bases 1 to 3103)
  AUTHORS   Kato,K., Oka,Y., Muramatsu,H., Vasilev,F.F., Otomo,T., Oishi,H.,
            Kawano,Y., Kidokoro,H., Nakazawa,Y., Ogi,T., Takahashi,Y. and
            Saitoh,S.
  TITLE     Biallelic VPS35L pathogenic variants cause
            3C/Ritscher-Schinzel-like syndrome through dysfunction of retriever
            complex
  JOURNAL   J Med Genet 57 (4), 245-253 (2020)
   PUBMED   31712251
  REMARK    GeneRIF: Biallelic VPS35L pathogenic variants cause
            3C/Ritscher-Schinzel-like syndrome through dysfunction of retriever
            complex.
REFERENCE   3  (bases 1 to 3103)
  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   4  (bases 1 to 3103)
  AUTHORS   Piao,Y., Ko,N.T., Lim,M.K. and Ko,M.S.
  TITLE     Construction of long-transcript enriched cDNA libraries from
            submicrogram amounts of total RNAs by a universal PCR amplification
            method
  JOURNAL   Genome Res 11 (9), 1553-1558 (2001)
   PUBMED   11544199
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            AC152412.2 and AC165086.4.
            
            On Jan 12, 2022 this sequence version replaced NM_027815.4.
            
            CCDS Note: The coding region has been updated to extend the
            N-terminus. The use of an alternative upstream would result in a
            protein that is 28 aa longer.
            
            ##Evidence-Data-START##
            Transcript exon combination :: BC054720.1, AK050302.1 [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: full length.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-35                AC152412.2         251-285             c
            36-135              AC165086.4         103924-104023       c
            136-303             AC165086.4         101076-101243       c
            304-426             AC165086.4         99370-99492         c
            427-451             AC165086.4         97927-97951         c
            452-528             AC165086.4         94725-94801         c
            529-657             AC165086.4         93684-93812         c
            658-742             AC165086.4         87373-87457         c
            743-802             AC165086.4         81194-81253         c
            803-899             AC165086.4         74501-74597         c
            900-947             AC165086.4         73571-73618         c
            948-1041            AC165086.4         72233-72326         c
            1042-1119           AC165086.4         67853-67930         c
            1120-1242           AC165086.4         67319-67441         c
            1243-1289           AC165086.4         57562-57608         c
            1290-1401           AC165086.4         56139-56250         c
            1402-1518           AC165086.4         54940-55056         c
            1519-1572           AC165086.4         53023-53076         c
            1573-1653           AC165086.4         50572-50652         c
            1654-1716           AC165086.4         47118-47180         c
            1717-1802           AC165086.4         46272-46357         c
            1803-1883           AC165086.4         43434-43514         c
            1884-1947           AC165086.4         40564-40627         c
            1948-2046           AC165086.4         37642-37740         c
            2047-2124           AC165086.4         35736-35813         c
            2125-2239           AC165086.4         33974-34088         c
            2240-2379           AC165086.4         21295-21434         c
            2380-2545           AC165086.4         13751-13916         c
            2546-2664           AC165086.4         9387-9505           c
            2665-2811           AC165086.4         6917-7063           c
            2812-3103           AC165086.4         6131-6422           c
FEATURES             Location/Qualifiers
     source          1..3103
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="7"
                     /map="7 63.61 cM"
     gene            1..3103
                     /gene="Vps35l"
                     /gene_synonym="2610029J22Rik; 9030624J02Rik; Vsp35l"
                     /note="VPS35 endosomal protein sorting factor like"
                     /db_xref="GeneID:71517"
                     /db_xref="MGI:MGI:1918767"
     exon            1..35
                     /gene="Vps35l"
                     /gene_synonym="2610029J22Rik; 9030624J02Rik; Vsp35l"
                     /inference="alignment:Splign:2.1.0"
     CDS             19..2910
                     /gene="Vps35l"
                     /gene_synonym="2610029J22Rik; 9030624J02Rik; Vsp35l"
                     /note="UPF0505 protein C16orf62 homolog"
                     /codon_start=1
                     /product="VPS35 endosomal protein-sorting factor-like"
                     /protein_id="NP_082091.4"
                     /db_xref="CCDS:CCDS21776.2"
                     /db_xref="GeneID:71517"
                     /db_xref="MGI:MGI:1918767"
                     /translation="MAVFPWHSRNRNYKAELASCRLETVPLECGDYHPLKPITVTESK
                     TKKVSRKGSTSSTSSSSSSSVIDPLSSVLDGTDPLSMFAATSDPAATGTVTDSSRKKR
                     DKDENSFVGPDFEPWANKRVEILARYTTTEKLSINLFMGSEKGRGGAAASAMSEKVRT
                     RLEELDDFEEGSQKELLNLTQQDYVNRIEELNQSLKDAWASDQKVKALKIVIQCSKLL
                     SDTSVIQFYPSKFVLITDILDTFGKLVYERISSMCVDSRSALPDHFSPENVNDTAKET
                     CLNWFFKIASIRELIPRFYVEASILKCNKFLSKTGISECLPRLTCMIRGIGDPLVSVY
                     ARAYLCRVGIEVAPHLKESLNKNFFDFLLTFKQIHGDTVQNQLVAQGVELLSYLPLYS
                     PAMGWIFQCVSYHAPEALLTEMMERCKKLGNNALLLNSVMSAFRAEFVATRSMDFIGM
                     IKECDESGFPKHLLFRSLGLNLALADPPENDRLQILNEAWKVITKLKSPQDYINCAEV
                     WVEYTCRHFTKREVNTVLADVIKHMTPDRAFEDSYPQLQSIIQKVIAHFHDFSVLFSV
                     EKFLPFLDMFQKESVRVEVCKCIMEAFIKHQQEPTKDPVILNALLHICKTMHDSVNAL
                     TLEDEKRTLAHLINGFIKMVSFGRDFEQQLSFYVESRSMFCNLEPVLVQLIHSVNRLA
                     METRKVMKGNHSRKTAAFVRACVAYCFITIPSLVGIFTRLNLYLHSGQVALANQCLSQ
                     ADAFFKAAIGLVPEVPKTISIDGKLRPSEPFLLEFLCNFFSTLLIVPDHPEHGVLFLV
                     RELLNVIQDYTWEDSSDDKIRIYTSVLHLLSAMSQDTYLYHIDKVDSNDSLYGGDSKF
                     LAENSKLCEAVMAQILEHLKTLAKDEALKRQSLLGLSFFNSILAHGDLRNNKLNQLSV
                     NLWHLAQRHGCADTRTMVKTLDYIKKRSKQPDMNHLSELALRLPLQTRT"
     exon            36..135
                     /gene="Vps35l"
                     /gene_synonym="2610029J22Rik; 9030624J02Rik; Vsp35l"
                     /inference="alignment:Splign:2.1.0"
     exon            136..303
                     /gene="Vps35l"
                     /gene_synonym="2610029J22Rik; 9030624J02Rik; Vsp35l"
                     /inference="alignment:Splign:2.1.0"
     exon            304..426
                     /gene="Vps35l"
                     /gene_synonym="2610029J22Rik; 9030624J02Rik; Vsp35l"
                     /inference="alignment:Splign:2.1.0"
     exon            427..451
                     /gene="Vps35l"
                     /gene_synonym="2610029J22Rik; 9030624J02Rik; Vsp35l"
                     /inference="alignment:Splign:2.1.0"
     exon            452..528
                     /gene="Vps35l"
                     /gene_synonym="2610029J22Rik; 9030624J02Rik; Vsp35l"
                     /inference="alignment:Splign:2.1.0"
     exon            529..657
                     /gene="Vps35l"
                     /gene_synonym="2610029J22Rik; 9030624J02Rik; Vsp35l"
                     /inference="alignment:Splign:2.1.0"
     exon            658..742
                     /gene="Vps35l"
                     /gene_synonym="2610029J22Rik; 9030624J02Rik; Vsp35l"
                     /inference="alignment:Splign:2.1.0"
     exon            743..802
                     /gene="Vps35l"
                     /gene_synonym="2610029J22Rik; 9030624J02Rik; Vsp35l"
                     /inference="alignment:Splign:2.1.0"
     exon            803..899
                     /gene="Vps35l"
                     /gene_synonym="2610029J22Rik; 9030624J02Rik; Vsp35l"
                     /inference="alignment:Splign:2.1.0"
     exon            900..947
                     /gene="Vps35l"
                     /gene_synonym="2610029J22Rik; 9030624J02Rik; Vsp35l"
                     /inference="alignment:Splign:2.1.0"
     exon            948..1041
                     /gene="Vps35l"
                     /gene_synonym="2610029J22Rik; 9030624J02Rik; Vsp35l"
                     /inference="alignment:Splign:2.1.0"
     exon            1042..1119
                     /gene="Vps35l"
                     /gene_synonym="2610029J22Rik; 9030624J02Rik; Vsp35l"
                     /inference="alignment:Splign:2.1.0"
     exon            1120..1242
                     /gene="Vps35l"
                     /gene_synonym="2610029J22Rik; 9030624J02Rik; Vsp35l"
                     /inference="alignment:Splign:2.1.0"
     exon            1243..1289
                     /gene="Vps35l"
                     /gene_synonym="2610029J22Rik; 9030624J02Rik; Vsp35l"
                     /inference="alignment:Splign:2.1.0"
     exon            1290..1401
                     /gene="Vps35l"
                     /gene_synonym="2610029J22Rik; 9030624J02Rik; Vsp35l"
                     /inference="alignment:Splign:2.1.0"
     exon            1402..1518
                     /gene="Vps35l"
                     /gene_synonym="2610029J22Rik; 9030624J02Rik; Vsp35l"
                     /inference="alignment:Splign:2.1.0"
     exon            1519..1572
                     /gene="Vps35l"
                     /gene_synonym="2610029J22Rik; 9030624J02Rik; Vsp35l"
                     /inference="alignment:Splign:2.1.0"
     exon            1573..1653
                     /gene="Vps35l"
                     /gene_synonym="2610029J22Rik; 9030624J02Rik; Vsp35l"
                     /inference="alignment:Splign:2.1.0"
     exon            1654..1716
                     /gene="Vps35l"
                     /gene_synonym="2610029J22Rik; 9030624J02Rik; Vsp35l"
                     /inference="alignment:Splign:2.1.0"
     exon            1717..1802
                     /gene="Vps35l"
                     /gene_synonym="2610029J22Rik; 9030624J02Rik; Vsp35l"
                     /inference="alignment:Splign:2.1.0"
     exon            1803..1883
                     /gene="Vps35l"
                     /gene_synonym="2610029J22Rik; 9030624J02Rik; Vsp35l"
                     /inference="alignment:Splign:2.1.0"
     exon            1884..1947
                     /gene="Vps35l"
                     /gene_synonym="2610029J22Rik; 9030624J02Rik; Vsp35l"
                     /inference="alignment:Splign:2.1.0"
     exon            1948..2046
                     /gene="Vps35l"
                     /gene_synonym="2610029J22Rik; 9030624J02Rik; Vsp35l"
                     /inference="alignment:Splign:2.1.0"
     exon            2047..2124
                     /gene="Vps35l"
                     /gene_synonym="2610029J22Rik; 9030624J02Rik; Vsp35l"
                     /inference="alignment:Splign:2.1.0"
     exon            2125..2239
                     /gene="Vps35l"
                     /gene_synonym="2610029J22Rik; 9030624J02Rik; Vsp35l"
                     /inference="alignment:Splign:2.1.0"
     exon            2240..2379
                     /gene="Vps35l"
                     /gene_synonym="2610029J22Rik; 9030624J02Rik; Vsp35l"
                     /inference="alignment:Splign:2.1.0"
     exon            2380..2545
                     /gene="Vps35l"
                     /gene_synonym="2610029J22Rik; 9030624J02Rik; Vsp35l"
                     /inference="alignment:Splign:2.1.0"
     exon            2546..2664
                     /gene="Vps35l"
                     /gene_synonym="2610029J22Rik; 9030624J02Rik; Vsp35l"
                     /inference="alignment:Splign:2.1.0"
     exon            2665..2811
                     /gene="Vps35l"
                     /gene_synonym="2610029J22Rik; 9030624J02Rik; Vsp35l"
                     /inference="alignment:Splign:2.1.0"
     exon            2812..3103
                     /gene="Vps35l"
                     /gene_synonym="2610029J22Rik; 9030624J02Rik; Vsp35l"
                     /inference="alignment:Splign:2.1.0"
     regulatory      3080..3085
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Vps35l"
                     /gene_synonym="2610029J22Rik; 9030624J02Rik; Vsp35l"
                     /note="hexamer: ATTAAA"
     polyA_site      3103
                     /gene="Vps35l"
                     /gene_synonym="2610029J22Rik; 9030624J02Rik; Vsp35l"
                     /note="major polyA site"
ORIGIN      
        1 gatcatgtga ctgggaagat ggctgtcttt ccctggcatt cccggaacag gaactacaag
       61 gcggagctgg cgtcttgcag gttggagaca gtgcctctgg agtgcggcga ctaccacccg
      121 ctgaagccca tcactgtcac ggagtcaaag acaaagaaag tgagccggaa aggaagcacg
      181 tcttctacct cctcctcctc ttccagctcc gtgatcgatc ctctgagcag cgtcctcgat
      241 ggcaccgacc cgctctccat gtttgcagcc acctcggacc cggcagccac aggaacagtc
      301 acagacagct ccagaaagaa acgtgataag gatgagaact ccttcgtggg acctgatttc
      361 gagccctggg ccaacaaacg tgtggaaatc cttgcccggt acacaactac agagaagctg
      421 tctattaatc tgtttatggg atcagaaaaa ggcagaggtg gggctgcggc ttctgccatg
      481 tcagagaagg ttcggacgcg gctggaagag ctggatgact ttgaggaggg atcccagaag
      541 gagctgctga acctgaccca gcaggattat gtgaaccgca tagaggagct caaccagtct
      601 ctgaaggatg cctgggcctc ggaccagaag gtgaaggctc tgaagatcgt catccagtgt
      661 tcaaagctgc tgtcagacac gagtgttatt cagttctacc caagcaagtt tgtcctcatc
      721 accgacatcc ttgatacgtt tggaaagctg gtctatgagc gcatctcctc gatgtgtgtg
      781 gacagccgca gtgccttgcc agatcatttc tccccagaga acgtgaacga cacagccaag
      841 gagacatgcc tgaattggtt tttcaagatc gcttccatcc gggaactcat tccaagattt
      901 tatgtggaag catccatcct gaagtgtaac aagttcctct ccaaaacggg gatttcagag
      961 tgcctgcccc gactaacctg catgatcaga gggatcggag acccactcgt gtccgtgtac
     1021 gcccgggcct acctgtgtcg ggtggggatc gaagtggccc cgcacctcaa ggagagcctc
     1081 aataagaact tctttgactt cctgctgaca tttaaacaga ttcatgggga cactgtccag
     1141 aaccagctgg tggcccaggg tgtggagctg ctgtcctatc tccctctgta ctcgcctgcc
     1201 atgggctgga tcttccagtg tgtctcctac cacgctccag aggctttgct gacggagatg
     1261 atggaaagat gtaagaaact agggaacaat gctttgctgt tgaactccgt gatgtcagct
     1321 ttcagggctg agttcgttgc caccaggtct atggacttca tcggcatgat caaagagtgt
     1381 gacgagtccg gcttccccaa gcatctcctt tttcgttcat tggggttaaa cttggctttg
     1441 gctgatcctc ctgagaacga tcgacttcag attctcaatg aagcttggaa agtcatcact
     1501 aaactgaaga gtcctcagga ctacattaat tgtgccgagg tttgggtaga gtacacctgc
     1561 aggcatttca cgaaacgaga agttaacact gttctggctg acgtcatcaa gcacatgact
     1621 ccggatcgag catttgagga ctcttacccc cagctccagt caatcattca gaaagtcatc
     1681 gcccacttcc acgatttctc agttcttttc tcagtggaaa agtttctacc atttctggac
     1741 atgttccaga aagagagtgt gcgggtggag gtttgcaagt gcatcatgga agcctttatc
     1801 aagcaccagc aggagccaac caaggaccct gtcatcctca atgccctttt gcacatttgc
     1861 aagacaatgc acgactccgt gaacgctctc actcttgagg atgagaaaag gacgctggcc
     1921 cacttgatca atggatttat aaaaatggtg tcctttggcc gtgattttga acagcagctc
     1981 agcttttacg tcgagtccag gtctatgttt tgcaacctgg aacctgttct tgtgcagttg
     2041 atccatagtg tgaaccggtt ggcaatggaa acaaggaaag tcatgaaggg aaaccactcc
     2101 agaaagacag ctgcgtttgt ccgggcctgt gttgcctact gcttcatcac catcccgtcc
     2161 ctggtaggga tcttcacccg cctcaacctc tacctgcatt ccggtcaggt tgccttggcc
     2221 aaccagtgcc tctcccaagc tgatgctttc ttcaaagccg ccatcggcct cgttcccgaa
     2281 gtcccaaaga cgataagcat cgatgggaag ctgcggccgt cggagccctt cctactggaa
     2341 ttcctgtgca atttcttctc taccttattg attgtgccgg atcatccaga gcacggagtc
     2401 ctatttctgg ttcgagaact tctcaacgtg atccaggact acacctggga ggacagtagt
     2461 gatgacaaaa ttcgaatcta cacctctgtc ctgcacctgc tgtctgccat gagccaggac
     2521 acctatcttt accacataga caaagttgac tccaatgaca gcttgtacgg gggagactcc
     2581 aagttcctgg ctgagaacag caagctgtgt gaggctgtga tggctcagat cctggagcac
     2641 ctgaaaaccc tggccaaaga cgaggctctg aagcgacaga gcctgctggg cctctccttc
     2701 ttcaatagca tcctagccca cggggacctt cgtaacaaca agctgaacca actctctgtc
     2761 aacctatggc acctggcaca gagacacggc tgtgcagaca caaggactat ggtgaaaact
     2821 ctggattaca tcaagaagcg aagcaaacaa cctgacatga atcatctgtc agagctggcc
     2881 ctgaggctcc ctctgcaaac caggacctga gaacttgcct ttcgggagtc ccagtgccac
     2941 atcctggaag atctgcttgg ctgccattaa ctcttcctgg aatttagaag tttttgttat
     3001 ttttactttt atacagattg gttttaagct cttgccttct acttggctat tctgacagca
     3061 gaaggggaat cgacagaaca ttaaaaccca gtcttgttct tta
//
