LOCUS       NM_152233               3282 bp    mRNA    linear   PRI 19-SEP-2024
DEFINITION  Homo sapiens sorting nexin 6 (SNX6), transcript variant 2, mRNA.
ACCESSION   NM_152233
VERSION     NM_152233.4
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 3282)
  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   2  (bases 1 to 3282)
  AUTHORS   Ghosh,C., Xing,Y., Li,S., Hoyle,R.G., Sun,M., Li,J. and Sun,Y.
  TITLE     Sorting nexin 6 interacts with Cullin3 and regulates programmed
            death ligand 1 expression
  JOURNAL   FEBS Lett 595 (20), 2558-2569 (2021)
   PUBMED   34510437
  REMARK    GeneRIF: Sorting nexin 6 interacts with Cullin3 and regulates
            programmed death ligand 1 expression.
REFERENCE   3  (bases 1 to 3282)
  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   4  (bases 1 to 3282)
  AUTHORS   Haenig,C., Atias,N., Taylor,A.K., Mazza,A., Schaefer,M.H., Russ,J.,
            Riechers,S.P., Jain,S., Coughlin,M., Fontaine,J.F., Freibaum,B.D.,
            Brusendorf,L., Zenkner,M., Porras,P., Stroedicke,M., Schnoegl,S.,
            Arnsburg,K., Boeddrich,A., Pigazzini,L., Heutink,P., Taylor,J.P.,
            Kirstein,J., Andrade-Navarro,M.A., Sharan,R. and Wanker,E.E.
  TITLE     Interactome Mapping Provides a Network of Neurodegenerative Disease
            Proteins and Uncovers Widespread Protein Aggregation in Affected
            Brains
  JOURNAL   Cell Rep 32 (7), 108050 (2020)
   PUBMED   32814053
REFERENCE   5  (bases 1 to 3282)
  AUTHORS   Luck,K., Kim,D.K., Lambourne,L., Spirohn,K., Begg,B.E., Bian,W.,
            Brignall,R., Cafarelli,T., Campos-Laborie,F.J., Charloteaux,B.,
            Choi,D., Cote,A.G., Daley,M., Deimling,S., Desbuleux,A., Dricot,A.,
            Gebbia,M., Hardy,M.F., Kishore,N., Knapp,J.J., Kovacs,I.A.,
            Lemmens,I., Mee,M.W., Mellor,J.C., Pollis,C., Pons,C.,
            Richardson,A.D., Schlabach,S., Teeking,B., Yadav,A., Babor,M.,
            Balcha,D., Basha,O., Bowman-Colin,C., Chin,S.F., Choi,S.G.,
            Colabella,C., Coppin,G., D'Amata,C., De Ridder,D., De Rouck,S.,
            Duran-Frigola,M., Ennajdaoui,H., Goebels,F., Goehring,L., Gopal,A.,
            Haddad,G., Hatchi,E., Helmy,M., Jacob,Y., Kassa,Y., Landini,S.,
            Li,R., van Lieshout,N., MacWilliams,A., Markey,D., Paulson,J.N.,
            Rangarajan,S., Rasla,J., Rayhan,A., Rolland,T., San-Miguel,A.,
            Shen,Y., Sheykhkarimli,D., Sheynkman,G.M., Simonovsky,E., Tasan,M.,
            Tejeda,A., Tropepe,V., Twizere,J.C., Wang,Y., Weatheritt,R.J.,
            Weile,J., Xia,Y., Yang,X., Yeger-Lotem,E., Zhong,Q., Aloy,P.,
            Bader,G.D., De Las Rivas,J., Gaudet,S., Hao,T., Rak,J.,
            Tavernier,J., Hill,D.E., Vidal,M., Roth,F.P. and Calderwood,M.A.
  TITLE     A reference map of the human binary protein interactome
  JOURNAL   Nature 580 (7803), 402-408 (2020)
   PUBMED   32296183
REFERENCE   6  (bases 1 to 3282)
  AUTHORS   Camargo,L.M., Collura,V., Rain,J.C., Mizuguchi,K., Hermjakob,H.,
            Kerrien,S., Bonnert,T.P., Whiting,P.J. and Brandon,N.J.
  TITLE     Disrupted in Schizophrenia 1 Interactome: evidence for the close
            connectivity of risk genes and a potential synaptic basis for
            schizophrenia
  JOURNAL   Mol Psychiatry 12 (1), 74-86 (2007)
   PUBMED   17043677
REFERENCE   7  (bases 1 to 3282)
  AUTHORS   Ishibashi,Y., Maita,H., Yano,M., Koike,N., Tamai,K., Ariga,H. and
            Iguchi-Ariga,S.M.
  TITLE     Pim-1 translocates sorting nexin 6/TRAF4-associated factor 2 from
            cytoplasm to nucleus
  JOURNAL   FEBS Lett 506 (1), 33-38 (2001)
   PUBMED   11591366
REFERENCE   8  (bases 1 to 3282)
  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   9  (bases 1 to 3282)
  AUTHORS   Parks,W.T., Frank,D.B., Huff,C., Renfrew Haft,C., Martin,J.,
            Meng,X., de Caestecker,M.P., McNally,J.G., Reddi,A., Taylor,S.I.,
            Roberts,A.B., Wang,T. and Lechleider,R.J.
  TITLE     Sorting nexin 6, a novel SNX, interacts with the transforming
            growth factor-beta family of receptor serine-threonine kinases
  JOURNAL   J Biol Chem 276 (22), 19332-19339 (2001)
   PUBMED   11279102
REFERENCE   10 (bases 1 to 3282)
  AUTHORS   Wurthner,J.U., Frank,D.B., Felici,A., Green,H.M., Cao,Z.,
            Schneider,M.D., McNally,J.G., Lechleider,R.J. and Roberts,A.B.
  TITLE     Transforming growth factor-beta receptor-associated protein 1 is a
            Smad4 chaperone
  JOURNAL   J Biol Chem 276 (22), 19495-19502 (2001)
   PUBMED   11278302
COMMENT     REVIEWED REFSEQ: This record has been curated by NCBI staff. The
            reference sequence was derived from DB021488.1, U83194.1,
            BI870378.1, AF121856.2, AK124315.1 and AI446034.1.
            
            On Oct 10, 2018 this sequence version replaced NM_152233.3.
            
            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 associates with the long isoform of the
            leptin receptor, the transforming growth factor-beta family of
            receptor serine-threonine kinases, and with receptor tyrosine
            kinases for platelet-derived growth factor, insulin, and epidermal
            growth factor. This protein may form oligomeric complexes with
            family member proteins through interactions of both the PX domain
            and the coiled coil regions of the molecules. Translocation of this
            protein from the cytoplasm to the nucleus occurs after binding to
            proviral integration site 1 protein. This gene results in two
            transcripts encoding two distinct isoforms. [provided by RefSeq,
            Jul 2008].
            
            Transcript Variant: This variant (2) encodes the longest isoform
            (b).
            
            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 :: SRR1803611.119176.1,
                                           SRR1803617.10341.1 [ECO:0000332]
            RNAseq introns              :: mixed sample support SAMEA1965299,
                                           SAMEA1966682 [ECO:0006172]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000362031.10/ ENSP00000355217.5
            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
            1-20                DB021488.1         36-55
            21-688              U83194.1           1-668
            689-1286            BI870378.1         82-679
            1287-1468           U83194.1           1267-1448
            1469-1966           AF121856.2         1450-1947
            1967-2963           AK124315.1         1275-2271
            2964-3282           AI446034.1         9-327               c
FEATURES             Location/Qualifiers
     source          1..3282
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="14"
                     /map="14q13.1"
     gene            1..3282
                     /gene="SNX6"
                     /gene_synonym="MSTP010; TFAF2"
                     /note="sorting nexin 6"
                     /db_xref="GeneID:58533"
                     /db_xref="HGNC:HGNC:14970"
                     /db_xref="MIM:606098"
     exon            1..38
                     /gene="SNX6"
                     /gene_synonym="MSTP010; TFAF2"
                     /inference="alignment:Splign:2.1.0"
     CDS             33..1253
                     /gene="SNX6"
                     /gene_synonym="MSTP010; TFAF2"
                     /note="isoform b is encoded by transcript variant 2; tumor
                     necrosis factor receptor-associated factor
                     4(TRAF4)-associated factor 2; TRAF4-associated factor 2"
                     /codon_start=1
                     /product="sorting nexin-6 isoform b"
                     /protein_id="NP_689419.3"
                     /db_xref="CCDS:CCDS41942.2"
                     /db_xref="GeneID:58533"
                     /db_xref="HGNC:HGNC:14970"
                     /db_xref="MIM:606098"
                     /translation="MMEGLDDGPDFLSEEDRGLKAINVDLQSDAALQVDISDALSERD
                     KVKFTVHTKSSLPNFKQNEFSVVRQHEEFIWLHDSFVENEDYAGYIIPPAPPRPDFDA
                     SREKLQKLGEGEGSMTKEEFTKMKQELEAEYLAIFKKTVAMHEVFLCRVAAHPILRRD
                     LNFHVFLEYNQDLSVRGKNKKEKLEDFFKNMVKSADGVIVSGVKDVDDFFEHERTFLL
                     EYHNRVKDASAKSDRMTRSHKSAADDYNRIGSSLYALGTQDSTDICKFFLKVSELFDK
                     TRKIEARVSADEDLKLSDLLKYYLRESQAAKDLLYRRSRSLVDYENANKALDKARAKN
                     KDVLQAETSQQLCCQKFEKISESAKQELIDFKTRRVAAFRKNLVELAELELKHAKGNL
                     QLLQNCLAVLNGDT"
     exon            39..86
                     /gene="SNX6"
                     /gene_synonym="MSTP010; TFAF2"
                     /inference="alignment:Splign:2.1.0"
     exon            87..191
                     /gene="SNX6"
                     /gene_synonym="MSTP010; TFAF2"
                     /inference="alignment:Splign:2.1.0"
     exon            192..302
                     /gene="SNX6"
                     /gene_synonym="MSTP010; TFAF2"
                     /inference="alignment:Splign:2.1.0"
     exon            303..424
                     /gene="SNX6"
                     /gene_synonym="MSTP010; TFAF2"
                     /inference="alignment:Splign:2.1.0"
     exon            425..548
                     /gene="SNX6"
                     /gene_synonym="MSTP010; TFAF2"
                     /inference="alignment:Splign:2.1.0"
     exon            549..644
                     /gene="SNX6"
                     /gene_synonym="MSTP010; TFAF2"
                     /inference="alignment:Splign:2.1.0"
     exon            645..750
                     /gene="SNX6"
                     /gene_synonym="MSTP010; TFAF2"
                     /inference="alignment:Splign:2.1.0"
     exon            751..826
                     /gene="SNX6"
                     /gene_synonym="MSTP010; TFAF2"
                     /inference="alignment:Splign:2.1.0"
     exon            827..866
                     /gene="SNX6"
                     /gene_synonym="MSTP010; TFAF2"
                     /inference="alignment:Splign:2.1.0"
     exon            867..953
                     /gene="SNX6"
                     /gene_synonym="MSTP010; TFAF2"
                     /inference="alignment:Splign:2.1.0"
     exon            954..1113
                     /gene="SNX6"
                     /gene_synonym="MSTP010; TFAF2"
                     /inference="alignment:Splign:2.1.0"
     exon            1114..1199
                     /gene="SNX6"
                     /gene_synonym="MSTP010; TFAF2"
                     /inference="alignment:Splign:2.1.0"
     exon            1200..3282
                     /gene="SNX6"
                     /gene_synonym="MSTP010; TFAF2"
                     /inference="alignment:Splign:2.1.0"
     regulatory      1871..1876
                     /regulatory_class="polyA_signal_sequence"
                     /gene="SNX6"
                     /gene_synonym="MSTP010; TFAF2"
                     /note="hexamer: AATAAA"
     polyA_site      1891
                     /gene="SNX6"
                     /gene_synonym="MSTP010; TFAF2"
                     /note="major polyA site"
     regulatory      1945..1950
                     /regulatory_class="polyA_signal_sequence"
                     /gene="SNX6"
                     /gene_synonym="MSTP010; TFAF2"
                     /note="hexamer: AATAAA"
     polyA_site      1972
                     /gene="SNX6"
                     /gene_synonym="MSTP010; TFAF2"
     regulatory      2939..2944
                     /regulatory_class="polyA_signal_sequence"
                     /gene="SNX6"
                     /gene_synonym="MSTP010; TFAF2"
                     /note="hexamer: AATAAA"
     polyA_site      2974
                     /gene="SNX6"
                     /gene_synonym="MSTP010; TFAF2"
     regulatory      3262..3267
                     /regulatory_class="polyA_signal_sequence"
                     /gene="SNX6"
                     /gene_synonym="MSTP010; TFAF2"
                     /note="hexamer: AATGAA"
     polyA_site      3282
                     /gene="SNX6"
                     /gene_synonym="MSTP010; TFAF2"
ORIGIN      
        1 gcgcctgcgc cggccctcgc ctcggagcag ccatgatgga aggcctggac gacggcccgg
       61 acttcctctc agaagaggac cgcggactta aagcaataaa tgtagatctt caaagtgatg
      121 ctgctctgca ggtggacatt tctgatgctc ttagtgagcg ggataaagta aaattcactg
      181 ttcacacaaa gagttcattg ccaaatttta aacaaaacga gttttcagtt gttcggcaac
      241 atgaggaatt tatctggctt catgattcct ttgttgaaaa tgaagactat gcaggttata
      301 tcattccacc agcaccacca agacctgatt ttgatgcttc aagggaaaaa ctacagaagc
      361 ttggtgaagg agaagggtca atgacgaagg aagaattcac aaagatgaaa caggaactgg
      421 aagctgaata tttggcaata ttcaagaaga cagttgcgat gcatgaagtg ttcctgtgtc
      481 gtgtggcagc acatcctatt ttgagaagag atttaaattt ccatgtcttc ttggaatata
      541 atcaagattt gagtgtgcga ggaaaaaata aaaaagagaa acttgaagac ttctttaaaa
      601 acatggttaa atcagcagat ggagtaatcg tttcaggagt aaaggatgta gatgatttct
      661 ttgagcacga acgaacattt cttttggagt atcataaccg agttaaggat gcatctgcta
      721 aatctgatag aatgacaaga tcccacaaaa gtgctgcaga tgattacaat agaattggtt
      781 cttcattata tgctttagga actcaggatt ctacagatat atgcaagttt tttctcaaag
      841 tttcagaact gttcgataaa acaagaaaaa tagaagcacg agtgtctgct gatgaagacc
      901 tcaaactttc tgatctttta aaatattact taagagaatc tcaagctgct aaggatctcc
      961 tgtatcgaag gtctaggtca ctagtggatt atgaaaatgc taataaagca ctggataaag
     1021 caagagcaaa aaataaagat gttctacagg ccgaaacttc ccaacaatta tgttgtcaga
     1081 aatttgaaaa aatatctgag tctgcaaaac aagaacttat agattttaag acaagaagag
     1141 ttgctgcatt cagaaaaaat ttagtggaac tggcagagtt agaactgaag catgcaaagg
     1201 gtaatctaca gttgctgcag aactgcctgg cagtgttaaa tggagacaca taagccacac
     1261 tccgccttcc tgttaaaaag ggctgccttc cttcaaattt tatttttgtt ttcttaatga
     1321 tgttaagcat ttatgctcac tggaaacaaa caaaaagcag ctgaaaaagt gcatcaactc
     1381 ctctttttct gagaaacatg gagcagcgca cgcccaggcg atgccagtct gtgtgccgtg
     1441 atgccgcact gtgttcccca tgacagtggt ccatcatcgt gcactcgtca tactcagaag
     1501 tccaaagttc attcttcttt aaagtagcct ctataactct gtttatttta taaatagtat
     1561 tccttatggc tgccactctt atttaccttt aaataatttc tgaaatttaa ccttttcaga
     1621 atgcattgtt gaaacaagat aaagattgcc ttttttgaat tttttaaatt ttgtttttaa
     1681 aagcatatac caccttagtt cattcatgta tcctggtaaa gcatcttaat cagacttatt
     1741 tttaattact gaatatttct tagacgtttt gggacagatt ttatgtaatc tttataagta
     1801 tgatttctga agaaaagcaa atgcattagt atgtttgcct taaacttgta gactaaacca
     1861 agtattgtaa aataaacagc gataacagtg atagttttta actctatggt cattgtatca
     1921 ctctggaaaa tgtggagtag ctgtaataaa tctactcctg tattatgctt tacagtgcag
     1981 gtcttagttt ttcttttttc tcatttcttt tgaaatggca tctcgaacaa agtccaccaa
     2041 tccctttaca aaagaatgaa ctgctcctct gtgtgtactt catagaaggt ggaatcggac
     2101 agaggcaggt tagtgacagt tattcctgaa atacaggagc agagtacagt ctgttgtggt
     2161 ttcccggatt ccgcgcctag ctcagccaat taagcatgag acataggcca ttgagccact
     2221 tagtagttat gcgagtggat agattggtat gtagagggaa agaggtctgc tgtaaagaac
     2281 aacacttgtt tgtctgtggg gaaagaaaag cagaatactt gagatgaaag ttggcataca
     2341 aataggatac tatcgccagt agttatatta caaacattat cggcctttct agtgtgaatg
     2401 aacattagac acattattgt cattcctagt ttaaagttaa ggttgcgtgg ttggattttt
     2461 ccactatctt tttctaattt ttctaccatt tggagaccgt aggcatttgg gcctgtcacc
     2521 ccttggatgg gttcctagtt tgtttacatt ttcctgaacc ctcctgagcg cccgttcttg
     2581 gtctaatccc cagtcgtgat gattccacac ttcctcagcc gcatgttgtc ttgcctcatt
     2641 catgagctgg tcagcgtttc gtctctttaa ctgacatgtt ccccagtgct gtttgaactg
     2701 ttgagtttcc gttgctggct gagtgcgttt tgtccttcac gtaaccttcg ctggtaaaaa
     2761 taagcccatg tgatgtccac cagtggatga atgctggacc gagagcccta gcttctggat
     2821 ccaggtctag gcccttcatc tgctgctctg tggcccaggg caggtttgct tgacctctgc
     2881 ctcagttctc gactctaaag gacatactga cctacctcac aggggtgttg tgaggattaa
     2941 taaatgttgg tactctgctt tggaaatgtg aaaatgctgt gtaaatgtta agaaatacta
     3001 agtatagggc cagaagctat acagtgtttc acttaaccgt ttgccattct gtatttacca
     3061 aggtggtctt ttctggggaa ggaagtagag tggaaggtgc atcccttggc ccctggttta
     3121 cattattagg gtgcttattg taggaatgca ctctaaaaag tgggcgtaga atgaaagcag
     3181 ccgtccagtg gtcctccctt ttctgtagtt tcacttttct tgcttcaagt tacagcagtc
     3241 acctgaaatc tgaaaatact aaatgaaaaa ctccagaaac aa
//
