LOCUS       NM_152227               2099 bp    mRNA    linear   PRI 12-FEB-2025
DEFINITION  Homo sapiens sorting nexin 5 (SNX5), transcript variant 1, mRNA.
ACCESSION   NM_152227
VERSION     NM_152227.3
KEYWORDS    RefSeq.
SOURCE      Homo sapiens (human)
  ORGANISM  Homo sapiens
            Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
            Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini;
            Catarrhini; Hominidae; Homo.
REFERENCE   1  (bases 1 to 2099)
  AUTHORS   Cabrera-Reyes,F., Contreras-Palacios,T., Ulloa,R., Jara-Wilde,J.,
            Caballero,M., Quiroga,C., Feijoo,C.G., Diaz-Munoz,J. and
            Yuseff,M.I.
  TITLE     SNX5 promotes antigen presentation in B cells by dual regulation of
            actin and lysosomal dynamics
  JOURNAL   Life Sci Alliance 8 (1), e202402917 (2024)
   PUBMED   39448266
  REMARK    GeneRIF: SNX5 promotes antigen presentation in B cells by dual
            regulation of actin and lysosomal dynamics.
            Publication Status: Online-Only
REFERENCE   2  (bases 1 to 2099)
  AUTHORS   Tornero-Ecija,A., Zapata-Del-Bano,A., Anton-Esteban,L., Vincent,O.
            and Escalante,R.
  TITLE     The association of lipid transfer protein VPS13A with endosomes is
            mediated by sorting nexin SNX5
  JOURNAL   Life Sci Alliance 6 (6), e202201852 (2023)
   PUBMED   36977596
  REMARK    GeneRIF: The association of lipid transfer protein VPS13A with
            endosomes is mediated by sorting nexin SNX5.
            Publication Status: Online-Only
REFERENCE   3  (bases 1 to 2099)
  AUTHORS   Li,Z.
  TITLE     Overexpression of lncRNA HOXA-AS2 promotes the progression of oral
            squamous cell carcinoma by mediating SNX5 expression
  JOURNAL   BMC Mol Cell Biol 23 (1), 59 (2022)
   PUBMED   36528556
  REMARK    GeneRIF: Overexpression of lncRNA HOXA-AS2 promotes the progression
            of oral squamous cell carcinoma by mediating SNX5 expression.
            Publication Status: Online-Only
REFERENCE   4  (bases 1 to 2099)
  AUTHORS   Cho,N.H., Cheveralls,K.C., Brunner,A.D., Kim,K., Michaelis,A.C.,
            Raghavan,P., Kobayashi,H., Savy,L., Li,J.Y., Canaj,H., Kim,J.Y.S.,
            Stewart,E.M., Gnann,C., McCarthy,F., Cabrera,J.P., Brunetti,R.M.,
            Chhun,B.B., Dingle,G., Hein,M.Y., Huang,B., Mehta,S.B.,
            Weissman,J.S., Gomez-Sjoberg,R., Itzhak,D.N., Royer,L.A., Mann,M.
            and Leonetti,M.D.
  TITLE     OpenCell: Endogenous tagging for the cartography of human cellular
            organization
  JOURNAL   Science 375 (6585), eabi6983 (2022)
   PUBMED   35271311
REFERENCE   5  (bases 1 to 2099)
  AUTHORS   Huttlin,E.L., Bruckner,R.J., Navarrete-Perea,J., Cannon,J.R.,
            Baltier,K., Gebreab,F., Gygi,M.P., Thornock,A., Zarraga,G., Tam,S.,
            Szpyt,J., Gassaway,B.M., Panov,A., Parzen,H., Fu,S., Golbazi,A.,
            Maenpaa,E., Stricker,K., Guha Thakurta,S., Zhang,T., Rad,R.,
            Pan,J., Nusinow,D.P., Paulo,J.A., Schweppe,D.K., Vaites,L.P.,
            Harper,J.W. and Gygi,S.P.
  TITLE     Dual proteome-scale networks reveal cell-specific remodeling of the
            human interactome
  JOURNAL   Cell 184 (11), 3022-3040 (2021)
   PUBMED   33961781
REFERENCE   6  (bases 1 to 2099)
  AUTHORS   Wassmer,T., Attar,N., Bujny,M.V., Oakley,J., Traer,C.J. and
            Cullen,P.J.
  TITLE     A loss-of-function screen reveals SNX5 and SNX6 as potential
            components of the mammalian retromer
  JOURNAL   J Cell Sci 120 (Pt 1), 45-54 (2007)
   PUBMED   17148574
  REMARK    GeneRIF: SNX5 and SNX6 may constitute functional equivalents of
            Vps17p in mammalian retromer
REFERENCE   7  (bases 1 to 2099)
  AUTHORS   Merino-Trigo,A., Kerr,M.C., Houghton,F., Lindberg,A., Mitchell,C.,
            Teasdale,R.D. and Gleeson,P.A.
  TITLE     Sorting nexin 5 is localized to a subdomain of the early endosomes
            and is recruited to the plasma membrane following EGF stimulation
  JOURNAL   J Cell Sci 117 (Pt 26), 6413-6424 (2004)
   PUBMED   15561769
  REMARK    GeneRIF: SNX5 is localized to a subdomain of the early endosomes
            and is recruited to the cell membrane following EGF stimulation.
REFERENCE   8  (bases 1 to 2099)
  AUTHORS   Towler,M.C., Gleeson,P.A., Hoshino,S., Rahkila,P., Manalo,V.,
            Ohkoshi,N., Ordahl,C., Parton,R.G. and Brodsky,F.M.
  TITLE     Clathrin isoform CHC22, a component of neuromuscular and
            myotendinous junctions, binds sorting nexin 5 and has increased
            expression during myogenesis and muscle regeneration
  JOURNAL   Mol Biol Cell 15 (7), 3181-3195 (2004)
   PUBMED   15133132
REFERENCE   9  (bases 1 to 2099)
  AUTHORS   Teasdale,R.D., Loci,D., Houghton,F., Karlsson,L. and Gleeson,P.A.
  TITLE     A large family of endosome-localized proteins related to sorting
            nexin 1
  JOURNAL   Biochem J 358 (Pt 1), 7-16 (2001)
   PUBMED   11485546
REFERENCE   10 (bases 1 to 2099)
  AUTHORS   Otsuki,T., Kajigaya,S., Ozawa,K. and Liu,J.M.
  TITLE     SNX5, a new member of the sorting nexin family, binds to the
            Fanconi anemia complementation group A protein
  JOURNAL   Biochem Biophys Res Commun 265 (3), 630-635 (1999)
   PUBMED   10600472
COMMENT     REVIEWED REFSEQ: This record has been curated by NCBI staff. The
            reference sequence was derived from AF121855.1 and BC000100.3.
            
            On Jun 2, 2019 this sequence version replaced NM_152227.2.
            
            Summary: This gene encodes a member of the sorting nexin family.
            Members of this family contain a phox (PX) domain, which is a
            phosphoinositide binding domain, and are involved in intracellular
            trafficking. This protein functions in endosomal sorting, the
            phosphoinositide-signaling pathway, and macropinocytosis. This gene
            may play a role in the tumorigenesis of papillary thyroid
            carcinoma. Alternative splicing results in multiple transcript
            variants encoding different isoforms. [provided by RefSeq, Sep
            2013].
            
            Transcript Variant: This variant (1) differs in the 5' UTR,
            compared to variant 2. Variants 1 and 2 encode the same protein
            (isoform a).
            
            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 :: BC000100.3, SRR7346977.982725.1
                                           [ECO:0000332]
            RNAseq introns              :: mixed sample support SAMEA1965299,
                                           SAMEA1966682 [ECO:0006172]
            ##Evidence-Data-END##
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-1493              AF121855.1         54-1546
            1494-2099           BC000100.3         1530-2135
FEATURES             Location/Qualifiers
     source          1..2099
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="20"
                     /map="20p11.23"
     gene            1..2099
                     /gene="SNX5"
                     /note="sorting nexin 5"
                     /db_xref="GeneID:27131"
                     /db_xref="HGNC:HGNC:14969"
                     /db_xref="MIM:605937"
     exon            1..95
                     /gene="SNX5"
                     /inference="alignment:Splign:2.1.0"
     exon            96..178
                     /gene="SNX5"
                     /inference="alignment:Splign:2.1.0"
     CDS             128..1342
                     /gene="SNX5"
                     /note="isoform a is encoded by transcript variant 1"
                     /codon_start=1
                     /product="sorting nexin-5 isoform a"
                     /protein_id="NP_689413.1"
                     /db_xref="CCDS:CCDS13130.1"
                     /db_xref="GeneID:27131"
                     /db_xref="HGNC:HGNC:14969"
                     /db_xref="MIM:605937"
                     /translation="MAAVPELLQQQEEDRSKLRSVSVDLNVDPSLQIDIPDALSERDK
                     VKFTVHTKTTLPTFQSPEFSVTRQHEDFVWLHDTLIETTDYAGLIIPPAPTKPDFDGP
                     REKMQKLGEGEGSMTKEEFAKMKQELEAEYLAVFKKTVSSHEVFLQRLSSHPVLSKDR
                     NFHVFLEYDQDLSVRRKNTKEMFGGFFKSVVKSADEVLFTGVKEVDDFFEQEKNFLIN
                     YYNRIKDSCVKADKMTRSHKNVADDYIHTAACLHSLALEEPTVIKKYLLKVAELFEKL
                     RKVEGRVSSDEDLKLTELLRYYMLNIEAAKDLLYRRTKALIDYENSNKALDKARLKSK
                     DVKLAEAHQQECCQKFEQLSESAKEELINFKRKRVAAFRKNLIEMSELEIKHARNNVS
                     LLQSCIDLFKNN"
     exon            179..283
                     /gene="SNX5"
                     /inference="alignment:Splign:2.1.0"
     exon            284..394
                     /gene="SNX5"
                     /inference="alignment:Splign:2.1.0"
     exon            395..516
                     /gene="SNX5"
                     /inference="alignment:Splign:2.1.0"
     exon            517..640
                     /gene="SNX5"
                     /inference="alignment:Splign:2.1.0"
     exon            641..736
                     /gene="SNX5"
                     /inference="alignment:Splign:2.1.0"
     exon            737..842
                     /gene="SNX5"
                     /inference="alignment:Splign:2.1.0"
     exon            843..918
                     /gene="SNX5"
                     /inference="alignment:Splign:2.1.0"
     exon            919..958
                     /gene="SNX5"
                     /inference="alignment:Splign:2.1.0"
     exon            959..1045
                     /gene="SNX5"
                     /inference="alignment:Splign:2.1.0"
     exon            1046..1205
                     /gene="SNX5"
                     /inference="alignment:Splign:2.1.0"
     exon            1206..1291
                     /gene="SNX5"
                     /inference="alignment:Splign:2.1.0"
     exon            1292..2099
                     /gene="SNX5"
                     /inference="alignment:Splign:2.1.0"
     regulatory      2083..2088
                     /regulatory_class="polyA_signal_sequence"
                     /gene="SNX5"
                     /note="hexamer: AATAAT"
     polyA_site      2099
                     /gene="SNX5"
                     /note="major polyA site"
ORIGIN      
        1 ctttctctag acgcgtcttg ctgggagagt gtccgttgct tcccgtccgt gtcgcggccc
       61 tgcggttggc ggcctcctcg tggagcggag caaggccagg cggcccctgc tcgagtcccg
      121 cgtcgccatg gccgcggttc ccgagttgct gcagcagcag gaggaggacc gcagcaagct
      181 gagatctgta tctgtggacc tgaatgttga tccctcgctt cagattgaca tacctgatgc
      241 gctcagtgag agagacaaag tcaaatttac agtgcacaca aagaccacac tgcccacgtt
      301 tcagagccca gagttttctg ttacaaggca acatgaagac tttgtgtggc tacatgacac
      361 tcttattgaa acaacagact atgctgggct tattattcca cctgctccta cgaagcccga
      421 ctttgatggt cctcgagaga agatgcagaa actgggagaa ggtgaagggt ctatgaccaa
      481 agaagaattt gccaagatga aacaagaact ggaagctgag tatctcgctg tgtttaagaa
      541 gactgtgtcc tcccatgaag tctttcttca gcggctttct tctcaccctg ttctcagtaa
      601 agatcgcaac tttcatgttt tcctggaata tgatcaggat ctaagtgtta ggcggaaaaa
      661 tactaaagag atgtttggtg gcttcttcaa aagtgtggtg aaaagtgctg atgaagtcct
      721 ttttactgga gttaaggagg tagatgactt ctttgagcaa gagaagaact tccttattaa
      781 ctattacaat aggatcaaag attcttgtgt gaaagctgac aaaatgacca gatctcataa
      841 aaatgttgcc gatgactata tccacaccgc agcctgctta catagcctgg ctttagaaga
      901 gcccacagtc atcaaaaagt acctattgaa ggttgctgag ctatttgaaa aactaaggaa
      961 agtagagggt cgagtttcat cagatgaaga tttgaagcta acagagctcc tccgatacta
     1021 catgctcaac attgaagctg ctaaggatct cttatacaga cgcaccaaag ccctcattga
     1081 ctatgagaac tcaaacaaag ctctggataa ggcccggtta aagagcaaag acgtcaagtt
     1141 ggctgaggca caccagcagg agtgctgcca gaaatttgaa caactttccg aatctgcaaa
     1201 agaagaactg ataaatttca aacggaagag agtggcagca tttagaaaga atctaattga
     1261 aatgtctgaa ctggaaataa aacatgccag gaacaatgtc tcccttttgc agagctgtat
     1321 tgacttgttc aagaataact gatatgcctt cactcagaag aaaagaaatg aatgtgaaag
     1381 aaagccaagc atcacttgca cttaaatcat taccacggaa gatatattag cttcaacttt
     1441 agtttaaaat tatgtgaata aatattttga tttctacaaa tcttaacatt taaccatgtt
     1501 ggtttaaaaa tattattgct tgctacttgg acataactaa tttttccttg tgcatttaat
     1561 acctctgggc agaatccaaa tactgggttc tcccgtagtt cgtctttagt tactaagaaa
     1621 gggtgtagga cacattagcc ttctggaaac aagtagaagc catcacctgg cccatgtccc
     1681 tacaaaccca tgattgtcag ggaggtgcca gttacagcag gtgattcagc tacttgaggt
     1741 cggtaacaga ccttccattc ctcactgaag gtggggtttg tgtttttgtt ttgccctgtt
     1801 actccactgg tagtcatctg gtgtttgtac tataacaaca gcaagaaaat ctcatttatc
     1861 tttatatact ctttgcacct ccttttttta gtcgagatat aaatatttga ggggagagaa
     1921 atatctacag gtatatatgg aaacaaataa tgtggtctgc tttataagat ggccagatct
     1981 acattaggaa aagtataagc cccctcccta atggccgctg gggggtgagg gcggtgtgtt
     2041 gtatgtcttt gggtgtttgt ttttttataa agcatataat aaaataatcg tgctactaa
//
