LOCUS       NM_182854               2860 bp    mRNA    linear   PRI 19-SEP-2024
DEFINITION  Homo sapiens sorting nexin 20 (SNX20), transcript variant 1, mRNA.
ACCESSION   NM_182854
VERSION     NM_182854.4
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 2860)
  AUTHORS   Chen,X., Jiang,X., Wang,H., Wang,C., Wang,C., Pan,C., Zhou,F.,
            Tian,J., Niu,X., Nie,Z., Chen,W., Huang,X., Pu,J. and Li,C.
  TITLE     DNA methylation-regulated SNX20 overexpression correlates with poor
            prognosis, immune cell infiltration, and low-grade glioma
            progression
  JOURNAL   Aging (Albany NY) 14 (12), 5211-5222 (2022)
   PUBMED   35771139
  REMARK    GeneRIF: DNA methylation-regulated SNX20 overexpression correlates
            with poor prognosis, immune cell infiltration, and low-grade glioma
            progression.
REFERENCE   2  (bases 1 to 2860)
  AUTHORS   Xia,F., Yu,Z., Deng,A. and Gao,G.
  TITLE     Identification of molecular subtyping system and four-gene
            prognostic signature with immune-related genes for uveal melanoma
  JOURNAL   Exp Biol Med (Maywood) 247 (3), 246-262 (2022)
   PUBMED   34743576
  REMARK    GeneRIF: Identification of molecular subtyping system and four-gene
            prognostic signature with immune-related genes for uveal melanoma.
REFERENCE   3  (bases 1 to 2860)
  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   4  (bases 1 to 2860)
  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   5  (bases 1 to 2860)
  AUTHORS   Fragoza,R., Das,J., Wierbowski,S.D., Liang,J., Tran,T.N., Liang,S.,
            Beltran,J.F., Rivera-Erick,C.A., Ye,K., Wang,T.Y., Yao,L., Mort,M.,
            Stenson,P.D., Cooper,D.N., Wei,X., Keinan,A., Schimenti,J.C.,
            Clark,A.G. and Yu,H.
  TITLE     Extensive disruption of protein interactions by genetic variants
            across the allele frequency spectrum in human populations
  JOURNAL   Nat Commun 10 (1), 4141 (2019)
   PUBMED   31515488
  REMARK    Publication Status: Online-Only
REFERENCE   6  (bases 1 to 2860)
  AUTHORS   Zhang,F.R., Huang,W., Chen,S.M., Sun,L.D., Liu,H., Li,Y., Cui,Y.,
            Yan,X.X., Yang,H.T., Yang,R.D., Chu,T.S., Zhang,C., Zhang,L.,
            Han,J.W., Yu,G.Q., Quan,C., Yu,Y.X., Zhang,Z., Shi,B.Q.,
            Zhang,L.H., Cheng,H., Wang,C.Y., Lin,Y., Zheng,H.F., Fu,X.A.,
            Zuo,X.B., Wang,Q., Long,H., Sun,Y.P., Cheng,Y.L., Tian,H.Q.,
            Zhou,F.S., Liu,H.X., Lu,W.S., He,S.M., Du,W.L., Shen,M., Jin,Q.Y.,
            Wang,Y., Low,H.Q., Erwin,T., Yang,N.H., Li,J.Y., Zhao,X.,
            Jiao,Y.L., Mao,L.G., Yin,G., Jiang,Z.X., Wang,X.D., Yu,J.P.,
            Hu,Z.H., Gong,C.H., Liu,Y.Q., Liu,R.Y., Wang,D.M., Wei,D.,
            Liu,J.X., Cao,W.K., Cao,H.Z., Li,Y.P., Yan,W.G., Wei,S.Y.,
            Wang,K.J., Hibberd,M.L., Yang,S., Zhang,X.J. and Liu,J.J.
  TITLE     Genomewide association study of leprosy
  JOURNAL   N Engl J Med 361 (27), 2609-2618 (2009)
   PUBMED   20018961
REFERENCE   7  (bases 1 to 2860)
  AUTHORS   Schaff,U.Y., Shih,H.H., Lorenz,M., Sako,D., Kriz,R., Milarski,K.,
            Bates,B., Tchernychev,B., Shaw,G.D. and Simon,S.I.
  TITLE     SLIC-1/sorting nexin 20: a novel sorting nexin that directs
            subcellular distribution of PSGL-1
  JOURNAL   Eur J Immunol 38 (2), 550-564 (2008)
   PUBMED   18196517
  REMARK    GeneRIF: Serves as a sorting molecule that cycles P-selectin ligand
            protein into endosomes with no impact on leukocyte recruitment.
REFERENCE   8  (bases 1 to 2860)
  AUTHORS   Seet,L.F. and Hong,W.
  TITLE     The Phox (PX) domain proteins and membrane traffic
  JOURNAL   Biochim Biophys Acta 1761 (8), 878-896 (2006)
   PUBMED   16782399
  REMARK    Review article
REFERENCE   9  (bases 1 to 2860)
  AUTHORS   Okubo,K., Itoh,K., Fukushima,A., Yoshii,J. and Matsubara,K.
  TITLE     Monitoring cell physiology by expression profiles and discovering
            cell type-specific genes by compiled expression profiles
  JOURNAL   Genomics 30 (2), 178-186 (1995)
   PUBMED   8586417
REFERENCE   10 (bases 1 to 2860)
  AUTHORS   Murakawa,K., Matsubara,K., Fukushima,A., Yoshii,J. and Okubo,K.
  TITLE     Chromosomal assignments of 3'-directed partial cDNA sequences
            representing novel genes expressed in granulocytoid cells
  JOURNAL   Genomics 23 (2), 379-389 (1994)
   PUBMED   7835887
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            AA278249.1, AY302441.1, AC007608.7 and BF446287.1.
            
            On Nov 22, 2018 this sequence version replaced NM_182854.3.
            
            Summary: SNX20 interacts with the cytoplasmic domain of PSGL1
            (SELPLG; MIM 600738) and cycles PSGL1 into endosomes.[supplied by
            OMIM, Feb 2010].
            
            Transcript Variant: This variant (1) encodes the longest isoform
            (1).
            
            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 :: BM149286.1, SRR1163657.280345.1
                                           [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA2157511, SAMEA2162895
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000330943.9/ ENSP00000332062.4
            RefSeq Select criteria :: based on conservation, expression,
                                      longest protein
            ##RefSeq-Attributes-END##
            COMPLETENESS: full length.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-57                AA278249.1         43-99
            58-1514             AY302441.1         1-1457
            1515-2358           AC007608.7         38741-39584
            2359-2860           BF446287.1         12-513              c
FEATURES             Location/Qualifiers
     source          1..2860
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="16"
                     /map="16q12.1"
     gene            1..2860
                     /gene="SNX20"
                     /gene_synonym="SLIC1"
                     /note="sorting nexin 20"
                     /db_xref="GeneID:124460"
                     /db_xref="HGNC:HGNC:30390"
                     /db_xref="MIM:613281"
     exon            1..123
                     /gene="SNX20"
                     /gene_synonym="SLIC1"
                     /inference="alignment:Splign:2.1.0"
     exon            124..262
                     /gene="SNX20"
                     /gene_synonym="SLIC1"
                     /inference="alignment:Splign:2.1.0"
     CDS             133..1083
                     /gene="SNX20"
                     /gene_synonym="SLIC1"
                     /note="isoform 1 is encoded by transcript variant 1;
                     selectin ligand-interactor cytoplasmic 1"
                     /codon_start=1
                     /product="sorting nexin-20 isoform 1"
                     /protein_id="NP_878274.1"
                     /db_xref="CCDS:CCDS10745.1"
                     /db_xref="GeneID:124460"
                     /db_xref="HGNC:HGNC:30390"
                     /db_xref="MIM:613281"
                     /translation="MASPEHPGSPGCMGPITQCTARTQQEAPATGPDLPHPGPDGHLD
                     THSGLSSNSSMTTRELQQYWQNQKCRWKHVKLLFEIASARIEERKVSKFVVYQIIVIQ
                     TGSFDNNKAVLERRYSDFAKLQKALLKTFREEIEDVEFPRKHLTGNFAEEMICERRRA
                     LQEYLGLLYAIRCVRRSREFLDFLTRPELREAFGCLRAGQYPRALELLLRVLPLQEKL
                     TAHCPAAAVPALCAVLLCHRDLDRPAEAFAAGERALQRLQAREGHRYYAPLLDAMVRL
                     AYALGKDFVTLQERLEESQLRRPTPRGITLKELTVREYLH"
     exon            263..414
                     /gene="SNX20"
                     /gene_synonym="SLIC1"
                     /inference="alignment:Splign:2.1.0"
     exon            415..2860
                     /gene="SNX20"
                     /gene_synonym="SLIC1"
                     /inference="alignment:Splign:2.1.0"
     regulatory      2805..2810
                     /regulatory_class="polyA_signal_sequence"
                     /gene="SNX20"
                     /gene_synonym="SLIC1"
                     /note="hexamer: ATTAAA"
     regulatory      2826..2831
                     /regulatory_class="polyA_signal_sequence"
                     /gene="SNX20"
                     /gene_synonym="SLIC1"
                     /note="hexamer: ATTAAA"
     polyA_site      2826
                     /gene="SNX20"
                     /gene_synonym="SLIC1"
                     /note="major polyA site"
     polyA_site      2860
                     /gene="SNX20"
                     /gene_synonym="SLIC1"
                     /note="major polyA site"
ORIGIN      
        1 aaacggggaa cttagaaagt ggcagcccct cggcttgtcg ccggagctga gaaccaagag
       61 ctcgaagggg ccatatgaca ctcctcccgg acccctggac acacacagcc ctggagactg
      121 gagccttgga gcatggcaag tccagagcac cctgggagcc ctggctgcat gggacccata
      181 acccagtgca cggcaaggac ccagcaggaa gcaccagcca ctggccccga cctcccgcac
      241 ccaggacctg acgggcactt agacacacac agtggcctga gctccaactc cagcatgacc
      301 acgcgggagc ttcagcagta ctggcagaac cagaaatgcc gctggaagca cgtcaaactg
      361 ctctttgaga tcgcttcagc tcgcatcgag gagagaaaag tctctaagtt tgtggtgtac
      421 caaatcatcg tcatccagac tgggagcttt gacaacaaca aggccgtcct ggaacggcgc
      481 tattccgact tcgcgaagct ccagaaagcg ctgctgaaga cgttcaggga ggagatcgaa
      541 gacgtggagt ttcccaggaa gcacctgact gggaacttcg ctgaggagat gatctgtgag
      601 cgtcggcgcg ccctgcagga gtacctgggc ctgctctacg ccatccgctg cgtgcgccgc
      661 tcccgggagt tcctggactt cctcacgcgg ccggagctgc gcgaggcttt cggctgcctg
      721 cgggccggcc agtacccgcg cgccctggag ctgctgctgc gcgtgctgcc gctgcaggag
      781 aagctcaccg cccactgccc tgcggccgcc gtcccggccc tgtgcgccgt gctgctgtgc
      841 caccgcgacc tcgaccgccc cgccgaggcc ttcgcggccg gagagagggc cctgcagcgc
      901 ctgcaggccc gggagggcca tcgctactat gcgcctctgc tggacgccat ggtccgcctg
      961 gcctacgcgc tgggcaagga cttcgtgact ctgcaggaga ggctggagga gagccagctc
     1021 cggaggccca cgccccgagg catcaccctg aaggagctca ctgtgcgaga atacctgcac
     1081 tgagccggcc tgggaccccg cagggacgct ggagatttgg ggtcaccatg gctcacagtg
     1141 ggctgtttgg ggttcttttt ttttattttt ccttttcttt tttgttattt gagacagtct
     1201 tgctctgtca cccagactga agtgcagtgg ctcaattatg tctcactgca gcctcaaact
     1261 cctgggcaca agcaatcctc ccacctcagc ctcccaagta gctgggatta caggtgcaca
     1321 ccaccacacc aggctaattt ttaatttttt agtagagaca gggtctctct gttgcccagg
     1381 ctggtctcta acttctgacc ttaaatgatc ttcctgcctc agcttcccaa aacactgggg
     1441 ttacaagtgt gagccaccac ccctggcctg gggttcattt ttaatgggaa aagccactgg
     1501 gggctctaac tcgctgggtg actttggaca agcccctcct ctggtcctca atttctccat
     1561 ctgtattgga cagaggtgct cctgggaccc cttggaagcc tctgcttgtg tcccacgtcc
     1621 tcttgatgcc agggccactt catctccaaa acacaaaacc aactgccaaa accgtccaga
     1681 gcagtgtcca ccccaccagt gtctttgtgg gaagctggag aagaagttta cctcacacat
     1741 tctagacaaa acttagtcca tttccttgaa gacagttctc tccagctgct ccaaggcttt
     1801 tctctctgtt ccttccacct tggaattgct ttaaaatatt tccatccatt atcctaatac
     1861 tatcttagta ttctagccct tcccccttac catgtagacc tgacaaagca aaacaaaagc
     1921 tcacctattg ccctcaagaa cagcctctac acacacacac acacacacac acacacacac
     1981 acacacacac acggtgggag ttgtatgcca tccttttgaa gggtgggagg accctggacc
     2041 agaaagcaat aatggcataa gattctgtga taccaggcat ttttggcaag ggaagttgcc
     2101 aacaattttt ctggctggga tggcatagca cattgtctag gggtggattt tcattcataa
     2161 ggcagctgtt ccctgaatgg cttccctggg ttatgtagaa acagcctggg gaggaggtga
     2221 tacaacatac ttaatggggc ctctgggcag aaaacagact gaatcctcaa cactgcccct
     2281 tttgagggtc tgtgatcctg gaacttctct gatggactgg gatgccctta actgaggtct
     2341 gctgtctgga aaggacacca caggcccaga atgaaggggc atctggacca atgacctaga
     2401 ttcaacacag ggcttggagc tggtggtaca ggctggtttt ggcccaatgt gtgttggagg
     2461 ctggaagccc ctgaagacct aaactgcctg gatgagctta ttagggtgaa ttaatgagtc
     2521 tgtaatttgg gaaccttaat gtgagacacc acttaaggag aggaacttgg cccagcaagt
     2581 gatcactcta gaagtggaca gctatgcact agactgcacc agaatctgtt caacagcgac
     2641 accttgtggt aaaaactgta gacgccccat caggctggat gggaaactag aaacagactg
     2701 tctcatcttt ggacagatat ccctcaaatc tcccaatcta ctccagggaa aagacacttc
     2761 aagtgagaga tattggactt cttgaaaatc taggcctatg gaaaattaaa gtgttaaatg
     2821 gaaaaattaa agagctatga gtctatttgt aatgatgaaa
//
