LOCUS       NM_016224               4216 bp    mRNA    linear   PRI 11-FEB-2025
DEFINITION  Homo sapiens sorting nexin 9 (SNX9), mRNA.
ACCESSION   NM_016224
VERSION     NM_016224.5
KEYWORDS    RefSeq; MANE Select.
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 4216)
  AUTHORS   Trefny,M.P., Kirchhammer,N., Auf der Maur,P., Natoli,M., Schmid,D.,
            Germann,M., Fernandez Rodriguez,L., Herzig,P., Lotscher,J.,
            Akrami,M., Stinchcombe,J.C., Stanczak,M.A., Zingg,A., Buchi,M.,
            Roux,J., Marone,R., Don,L., Lardinois,D., Wiese,M., Jeker,L.T.,
            Bentires-Alj,M., Rossy,J., Thommen,D.S., Griffiths,G.M., Laubli,H.,
            Hess,C. and Zippelius,A.
  TITLE     Deletion of SNX9 alleviates CD8 T cell exhaustion for effective
            cellular cancer immunotherapy
  JOURNAL   Nat Commun 14 (1), 86 (2023)
   PUBMED   36732507
  REMARK    GeneRIF: Deletion of SNX9 alleviates CD8 T cell exhaustion for
            effective cellular cancer immunotherapy.
            Publication Status: Online-Only
REFERENCE   2  (bases 1 to 4216)
  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   3  (bases 1 to 4216)
  AUTHORS   Ecker,M., Schregle,R., Kapoor-Kaushik,N., Rossatti,P.,
            Betzler,V.M., Kempe,D., Biro,M., Ariotti,N., Redpath,G.M. and
            Rossy,J.
  TITLE     SNX9-induced membrane tubulation regulates CD28 cluster stability
            and signalling
  JOURNAL   Elife 11, e67550 (2022)
   PUBMED   35050850
  REMARK    GeneRIF: SNX9-induced membrane tubulation regulates CD28 cluster
            stability and signalling.
            Publication Status: Online-Only
REFERENCE   4  (bases 1 to 4216)
  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   5  (bases 1 to 4216)
  AUTHORS   Wrobel,A.G., Kadlecova,Z., Kamenicky,J., Yang,J.C., Herrmann,T.,
            Kelly,B.T., McCoy,A.J., Evans,P.R., Martin,S., Muller,S.,
            Salomon,S., Sroubek,F., Neuhaus,D., Honing,S. and Owen,D.J.
  TITLE     Temporal Ordering in Endocytic Clathrin-Coated Vesicle Formation
            via AP2 Phosphorylation
  JOURNAL   Dev Cell 50 (4), 494-508 (2019)
   PUBMED   31430451
  REMARK    GeneRIF: NECAP recruits drivers of late stages of clathrin-coated
            pit (CCP) formation, including SNX9, via a site distinct from where
            NECAP binds AP2.
            Erratum:[Dev Cell. 2020 Mar 9;52(5):673. doi:
            10.1016/j.devcel.2020.02.010.. PMID: 32155440]
REFERENCE   6  (bases 1 to 4216)
  AUTHORS   Lundmark,R. and Carlsson,S.R.
  TITLE     Sorting nexin 9 participates in clathrin-mediated endocytosis
            through interactions with the core components
  JOURNAL   J Biol Chem 278 (47), 46772-46781 (2003)
   PUBMED   12952949
  REMARK    GeneRIF: SNX9 may be recruited together with dynamin-2 and become
            co-assembled with AP-2 and clathrin at the plasma membrane
REFERENCE   7  (bases 1 to 4216)
  AUTHORS   Lin,Q., Lo,C.G., Cerione,R.A. and Yang,W.
  TITLE     The Cdc42 target ACK2 interacts with sorting nexin 9 (SH3PX1) to
            regulate epidermal growth factor receptor degradation
  JOURNAL   J Biol Chem 277 (12), 10134-10138 (2002)
   PUBMED   11799118
  REMARK    GeneRIF: The Cdc42 target ACK2 interacts with sorting nexin 9
            (SH3PX1) to regulate epidermal growth factor receptor degradation
REFERENCE   8  (bases 1 to 4216)
  AUTHORS   Lundmark,R. and Carlsson,S.R.
  TITLE     The beta-appendages of the four adaptor-protein (AP) complexes:
            structure and binding properties, and identification of sorting
            nexin 9 as an accessory protein to AP-2
  JOURNAL   Biochem J 362 (Pt 3), 597-607 (2002)
   PUBMED   11879186
  REMARK    GeneRIF: SNX9 may function to assist AP-2 in its role at the plasma
            membrane.
REFERENCE   9  (bases 1 to 4216)
  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 4216)
  AUTHORS   Howard,L., Nelson,K.K., Maciewicz,R.A. and Blobel,C.P.
  TITLE     Interaction of the metalloprotease disintegrins MDC9 and MDC15 with
            two SH3 domain-containing proteins, endophilin I and SH3PX1
  JOURNAL   J Biol Chem 274 (44), 31693-31699 (1999)
   PUBMED   10531379
COMMENT     REVIEWED REFSEQ: This record has been curated by NCBI staff. The
            reference sequence was derived from DA336311.1, AF121859.1 and
            AL139330.17.
            
            On May 17, 2019 this sequence version replaced NM_016224.4.
            
            Summary: This gene encodes a member of the sorting nexin family.
            Members of this family contain a phosphoinositide binding domain,
            and are involved in intracellular trafficking. The encoded protein
            does not contain a coiled coil region, like some family members,
            but does contain a SRC homology domain near its N-terminus. The
            encoded protein is reported to have a variety of interaction
            partners, including of adaptor protein 2 , dynamin, tyrosine kinase
            non-receptor 2, Wiskott-Aldrich syndrome-like, and ARP3
            actin-related protein 3. The encoded protein is implicated in
            several stages of intracellular trafficking, including endocytosis,
            macropinocytosis, and F-actin nucleation. [provided by RefSeq, Jul
            2013].
            
            Sequence Note: This RefSeq record was created from transcript and
            genomic sequence data to make the sequence consistent with the
            reference genome assembly. The genomic coordinates used for the
            transcript record were based on transcript alignments.
            
            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 :: SRR1803614.223939.1,
                                           SRR1803614.213120.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA1965299, SAMEA1966682
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000392185.8/ ENSP00000376024.3
            RefSeq Select criteria :: based on conservation, expression,
                                      longest protein
            ##RefSeq-Attributes-END##
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-566               DA336311.1         22-587
            567-2436            AF121859.1         402-2271
            2437-4216           AL139330.17        154681-156460       c
FEATURES             Location/Qualifiers
     source          1..4216
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="6"
                     /map="6q25.3"
     gene            1..4216
                     /gene="SNX9"
                     /gene_synonym="SDP1; SH3PX1; SH3PXD3A; WISP"
                     /note="sorting nexin 9"
                     /db_xref="GeneID:51429"
                     /db_xref="HGNC:HGNC:14973"
                     /db_xref="MIM:605952"
     exon            1..201
                     /gene="SNX9"
                     /gene_synonym="SDP1; SH3PX1; SH3PXD3A; WISP"
                     /inference="alignment:Splign:2.1.0"
     CDS             190..1977
                     /gene="SNX9"
                     /gene_synonym="SDP1; SH3PX1; SH3PXD3A; WISP"
                     /note="Wiskott-Aldrich syndrome protein (WASP) interactor
                     protein; SH3 and PX domain-containing protein 1; SH3 and
                     PX domain-containing protein 3A"
                     /codon_start=1
                     /product="sorting nexin-9"
                     /protein_id="NP_057308.1"
                     /db_xref="CCDS:CCDS5253.1"
                     /db_xref="GeneID:51429"
                     /db_xref="HGNC:HGNC:14973"
                     /db_xref="MIM:605952"
                     /translation="MATKARVMYDFAAEPGNNELTVNEGEIITITNPDVGGGWLEGRN
                     IKGERGLVPTDYVEILPSDGKDQFSCGNSVADQAFLDSLSASTAQASSSAASNNHQVG
                     SGNDPWSAWSASKSGNWESSEGWGAQPEGAGAQRNTNTPNNWDTAFGHPQAYQGPATG
                     DDDDWDEDWDGPKSSSYFKDSESADAGGAQRGNSRASSSSMKIPLNKFPGFAKPGTEQ
                     YLLAKQLAKPKEKIPIIVGDYGPMWVYPTSTFDCVVADPRKGSKMYGLKSYIEYQLTP
                     TNTNRSVNHRYKHFDWLYERLLVKFGSAIPIPSLPDKQVTGRFEEEFIKMRMERLQAW
                     MTRMCRHPVISESEVFQQFLNFRDEKEWKTGKRKAERDELAGVMIFSTMEPEAPDLDL
                     VEIEQKCEAVGKFTKAMDDGVKELLTVGQEHWKRCTGPLPKEYQKIGKALQSLATVFS
                     SSGYQGETDLNDAITEAGKTYEEIASLVAEQPKKDLHFLMECNHEYKGFLGCFPDIIG
                     THKGAIEKVKESDKLVATSKITLQDKQNMVKRVSIMSYALQAEMNHFHSNRIYDYNSV
                     IRLYLEQQVQFYETIAEKLRQALSRFPVM"
     exon            202..288
                     /gene="SNX9"
                     /gene_synonym="SDP1; SH3PX1; SH3PXD3A; WISP"
                     /inference="alignment:Splign:2.1.0"
     exon            289..363
                     /gene="SNX9"
                     /gene_synonym="SDP1; SH3PX1; SH3PXD3A; WISP"
                     /inference="alignment:Splign:2.1.0"
     exon            364..489
                     /gene="SNX9"
                     /gene_synonym="SDP1; SH3PX1; SH3PXD3A; WISP"
                     /inference="alignment:Splign:2.1.0"
     exon            490..661
                     /gene="SNX9"
                     /gene_synonym="SDP1; SH3PX1; SH3PXD3A; WISP"
                     /inference="alignment:Splign:2.1.0"
     exon            662..809
                     /gene="SNX9"
                     /gene_synonym="SDP1; SH3PX1; SH3PXD3A; WISP"
                     /inference="alignment:Splign:2.1.0"
     exon            810..894
                     /gene="SNX9"
                     /gene_synonym="SDP1; SH3PX1; SH3PXD3A; WISP"
                     /inference="alignment:Splign:2.1.0"
     exon            895..1020
                     /gene="SNX9"
                     /gene_synonym="SDP1; SH3PX1; SH3PXD3A; WISP"
                     /inference="alignment:Splign:2.1.0"
     exon            1021..1138
                     /gene="SNX9"
                     /gene_synonym="SDP1; SH3PX1; SH3PXD3A; WISP"
                     /inference="alignment:Splign:2.1.0"
     exon            1139..1269
                     /gene="SNX9"
                     /gene_synonym="SDP1; SH3PX1; SH3PXD3A; WISP"
                     /inference="alignment:Splign:2.1.0"
     exon            1270..1373
                     /gene="SNX9"
                     /gene_synonym="SDP1; SH3PX1; SH3PXD3A; WISP"
                     /inference="alignment:Splign:2.1.0"
     exon            1374..1477
                     /gene="SNX9"
                     /gene_synonym="SDP1; SH3PX1; SH3PXD3A; WISP"
                     /inference="alignment:Splign:2.1.0"
     exon            1478..1555
                     /gene="SNX9"
                     /gene_synonym="SDP1; SH3PX1; SH3PXD3A; WISP"
                     /inference="alignment:Splign:2.1.0"
     exon            1556..1632
                     /gene="SNX9"
                     /gene_synonym="SDP1; SH3PX1; SH3PXD3A; WISP"
                     /inference="alignment:Splign:2.1.0"
     exon            1633..1722
                     /gene="SNX9"
                     /gene_synonym="SDP1; SH3PX1; SH3PXD3A; WISP"
                     /inference="alignment:Splign:2.1.0"
     exon            1723..1837
                     /gene="SNX9"
                     /gene_synonym="SDP1; SH3PX1; SH3PXD3A; WISP"
                     /inference="alignment:Splign:2.1.0"
     exon            1838..1929
                     /gene="SNX9"
                     /gene_synonym="SDP1; SH3PX1; SH3PXD3A; WISP"
                     /inference="alignment:Splign:2.1.0"
     exon            1930..4216
                     /gene="SNX9"
                     /gene_synonym="SDP1; SH3PX1; SH3PXD3A; WISP"
                     /inference="alignment:Splign:2.1.0"
     regulatory      2415..2420
                     /regulatory_class="polyA_signal_sequence"
                     /gene="SNX9"
                     /gene_synonym="SDP1; SH3PX1; SH3PXD3A; WISP"
                     /note="hexamer: AATAAA"
     polyA_site      2437
                     /gene="SNX9"
                     /gene_synonym="SDP1; SH3PX1; SH3PXD3A; WISP"
                     /note="major polyA site"
     regulatory      3621..3626
                     /regulatory_class="polyA_signal_sequence"
                     /gene="SNX9"
                     /gene_synonym="SDP1; SH3PX1; SH3PXD3A; WISP"
                     /note="hexamer: AATAAA"
     polyA_site      3644
                     /gene="SNX9"
                     /gene_synonym="SDP1; SH3PX1; SH3PXD3A; WISP"
     regulatory      3646..3651
                     /regulatory_class="polyA_signal_sequence"
                     /gene="SNX9"
                     /gene_synonym="SDP1; SH3PX1; SH3PXD3A; WISP"
                     /note="hexamer: AGTAAA"
     polyA_site      3675
                     /gene="SNX9"
                     /gene_synonym="SDP1; SH3PX1; SH3PXD3A; WISP"
                     /note="major polyA site"
     regulatory      3752..3757
                     /regulatory_class="polyA_signal_sequence"
                     /gene="SNX9"
                     /gene_synonym="SDP1; SH3PX1; SH3PXD3A; WISP"
                     /note="hexamer: AATGAA"
     polyA_site      3774
                     /gene="SNX9"
                     /gene_synonym="SDP1; SH3PX1; SH3PXD3A; WISP"
ORIGIN      
        1 gggagtagcc gagcgcccag cggctgggcc tgagcgtcga gactcggggc cgaggcggag
       61 gagcggccgc cgcgccgggg cccagccgga gccgccgccc tcgcccttgc ctttgcctgc
      121 gcggctcaga atcaccatcc gcggcgcggg agacgagccg gccgtcccgg gccgggggac
      181 ccgcccgcca tggccaccaa ggctcgggtt atgtatgatt ttgctgctga acctggaaat
      241 aatgaactga cggttaatga aggagaaatc atcacaatca caaatccgga tgtaggtgga
      301 ggatggctgg aaggaagaaa catcaaagga gaacgagggc tggttcccac agactacgtt
      361 gaaattttac ccagtgatgg aaaagatcaa ttttcttgtg gaaattcagt ggctgaccaa
      421 gccttccttg attctctctc agccagcaca gctcaggcca gttcgtcggc tgccagcaac
      481 aatcaccagg ttggcagtgg caatgacccc tggtcagcct ggagtgcctc caaatctggg
      541 aactgggaaa gctcagaagg ctggggggcc cagccagagg gggctggagc ccaaagaaac
      601 acaaacactc ccaacaactg ggacactgcc ttcggccacc cccaggccta ccaaggacca
      661 gcaactggtg atgatgatga ctgggatgaa gactgggatg ggcccaaatc ctcttcctac
      721 tttaaggatt cagagtcagc tgatgcaggc ggcgctcagc gaggaaacag tcgtgctagt
      781 tcctcatcca tgaaaattcc ccttaacaaa tttcctggat ttgcgaaacc tggcacggaa
      841 cagtatttgt tggccaaaca actagcaaaa cccaaagaga aaattcccat cattgttgga
      901 gattatggcc caatgtgggt ttatcctacc tctacttttg actgtgtggt agcagatccc
      961 aggaaaggct ccaaaatgta tggtctaaag agctacatcg aatatcagct aacacctact
     1021 aacactaatc gatctgtaaa ccacaggtat aagcactttg actggttata tgagcgtctc
     1081 ctggttaagt ttgggtcagc cattccaatc ccttctcttc cagacaaaca agtcacaggc
     1141 cgctttgaag aggaatttat caaaatgcgc atggagagac ttcaggcctg gatgaccagg
     1201 atgtgtcgcc atccagtaat ctcagaaagt gaagttttcc agcagttcct aaatttccga
     1261 gatgagaagg aatggaaaac tggaaagagg aaggccgaga gagatgagct ggcgggagtc
     1321 atgatatttt ccaccatgga accagaggca cctgacttgg acttagtaga aatagagcag
     1381 aagtgcgagg ctgtggggaa gttcaccaag gccatggatg acggcgtgaa ggagctgctg
     1441 acggtggggc aggagcactg gaagcgctgc acgggcccat tacccaagga atatcagaag
     1501 ataggaaagg ccttgcagag tttggccaca gtgttcagtt ccagtggcta tcaaggtgaa
     1561 acagatctca atgatgcaat aacagaagca ggaaagactt atgaagaaat tgccagtctc
     1621 gtggcagaac agccaaagaa agatctccat ttcctgatgg aatgtaatca cgagtataaa
     1681 ggttttcttg gctgcttccc tgacatcatt ggcactcaca agggagcaat agaaaaagtg
     1741 aaagaaagtg acaaactagt tgcaacaagt aaaatcaccc tacaagacaa acagaacatg
     1801 gtgaagagag tcagcatcat gtcttacgcg ttgcaagctg agatgaatca ctttcacagt
     1861 aaccggatct atgattacaa cagtgtcatc cgcctgtacc tggagcagca agtgcaattt
     1921 tacgaaacga ttgcagaaaa gctgaggcag gccctcagcc gctttccagt gatgtaggac
     1981 agaacgggcc ttgaagagaa tgccgcgtgc tttctcctga cttggggcaa tgcaattcaa
     2041 aacttttttt cccctattat tcagaaaaaa aaggaaacaa aaccaaaaag aaagagttgc
     2101 aaaaaactgc atttatttta ttagccaccc taaatgcgtc agttatttag ggatggtctt
     2161 ttgttcattt ccgcatccat tatttaaacc agtggaaatt gtctctattt ttggaaagta
     2221 cttaaaagtt accagaattt tcaatggaaa atgaggggtt tctccccact gatattttac
     2281 atagagtcat aatttatatg tcttataaat tataagtctt atataattta taagtctccc
     2341 acaatcttcc agttcttacc cagtgtcaga taattaatta ctaattactt tcttaaaaac
     2401 atgaactatg ccagaataaa aaatatctat gtttgtatat ttttataact cctttcagtc
     2461 ctctggggct cctgtcattg agggaagtcg ttacgccttt cactgccaca gttacagctc
     2521 aagtgcttac acttcaagag ggaggacgct gggggcccct ggggctgcta gtgccatcgt
     2581 ggtgtgtggc aggtgggcca tcccatgtcc ctccaggggg accccacagc ctggcagatg
     2641 agcagatacc cctggccacc catgtcctca gcgacatttc tgatgtgctg ctcttatgtg
     2701 aggaccagtg ctttctctct ttgcacttcc ttcctaatct tggttaaggc atgttttatg
     2761 ccatgaagaa tacattagaa gaattgaggg actttgtaga gaattttgtg gctttggtcc
     2821 aacgggtgag tggctgtgcg gaggcctgtg ttcgggaggg cctgggagaa ggagggcacc
     2881 cagcaccccg gcgtctctgg ccctttctta ttctttggct cctcatccac cgtgatgaga
     2941 agcgctgctg tggccacggc acactgcttg gcttgggtgg cgggttcatg gccagttggt
     3001 gtcatcagca aagagaaaaa gcacaggtta gctccccatt agatggaaaa gtgtagggac
     3061 tgagaagggc tgcagcctca gcagtgtaca gagtccccgg cgctctgagg ttggagagaa
     3121 agaacagacc agcgcccttc ccgactacat ccgaaacttc acacagggtg tttctgagca
     3181 ccagcacttc cagcgcttca cttaacggca taaagcaaaa caggaccttg gcacaccgtc
     3241 agctcgaact caacactggc agccaccgtc tcacccctgc ggaggagcgc tcccgtctcc
     3301 cacaggtgcc ttaccgcgtt ccctcccgct gctttcattt ttctgaccta ataattacgg
     3361 gaaatggaaa gtctgggcca gcatcaataa aatgacacca aaaataagta gatgaaatca
     3421 aatgaatatg agaacatctt gttcttcaat atcacgggtt tttgttaatg tttcataagt
     3481 aattctcccc acttgatttt tcttctataa aatcccatag aacaatgttt atgctatagc
     3541 catttaatat atgtacaaat tgtaaagaat atgtataaat gttttacacg aatgtaagag
     3601 catgtagaag ccaacatata aataaattgt ttaaaaaaac tgtacagtaa attctcaaag
     3661 cactttttca aaacactttt tggactttgt gtgtgatttt tgttgttgtt gttaagtact
     3721 ttttattcca gctgctgaaa atggtccagg taatgaattc ttccccaaat cctatttctt
     3781 ctgacatgaa ttcatcattt cagttccgta ggtcagtgtt gcggtccggg aagcgtatca
     3841 taaccacctg ggagttgcca agaagcagac agtctcccag tgtctgactc tcggatattt
     3901 ggatttgact ggtgtgaggc aaagtgaaaa agggatgggg gaaatggaga tggcacgggc
     3961 tcctcagagc gtggtagccg actgtgagga aaagcagagg gaatgtgaaa gaaaataaga
     4021 gaatccacgg gatttgatgc ctggaagatt ctccttcaag tggcaacatg gcatatatat
     4081 ccttctccgg ggagtcacat gcaccatttg gttcttagat acgttgatgt tttgattttt
     4141 aatgatttgt atcaacctgt aggtaccaca gaagagctgt agtcatacaa tcacataact
     4201 tttacaaata tagtgg
//
