LOCUS       NM_033421               3206 bp    mRNA    linear   PRI 19-SEP-2024
DEFINITION  Homo sapiens sorting nexin family member 21 (SNX21), transcript
            variant 1, mRNA.
ACCESSION   NM_033421
VERSION     NM_033421.4
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 3206)
  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   2  (bases 1 to 3206)
  AUTHORS   Danson,C.M., Pearson,N., Heesom,K.J. and Cullen,P.J.
  TITLE     Sorting nexin-21 is a scaffold for the endosomal recruitment of
            huntingtin
  JOURNAL   J Cell Sci 131 (17) (2018)
   PUBMED   30072438
  REMARK    GeneRIF: The N-terminal extension of SNX21 interacts with
            huntingtin and recruit Htt to an endosomal population.
            Publication Status: Online-Only
REFERENCE   3  (bases 1 to 3206)
  AUTHORS   Yang,X., Coulombe-Huntington,J., Kang,S., Sheynkman,G.M., Hao,T.,
            Richardson,A., Sun,S., Yang,F., Shen,Y.A., Murray,R.R., Spirohn,K.,
            Begg,B.E., Duran-Frigola,M., MacWilliams,A., Pevzner,S.J.,
            Zhong,Q., Wanamaker,S.A., Tam,S., Ghamsari,L., Sahni,N., Yi,S.,
            Rodriguez,M.D., Balcha,D., Tan,G., Costanzo,M., Andrews,B.,
            Boone,C., Zhou,X.J., Salehi-Ashtiani,K., Charloteaux,B., Chen,A.A.,
            Calderwood,M.A., Aloy,P., Roth,F.P., Hill,D.E., Iakoucheva,L.M.,
            Xia,Y. and Vidal,M.
  TITLE     Widespread Expansion of Protein Interaction Capabilities by
            Alternative Splicing
  JOURNAL   Cell 164 (4), 805-817 (2016)
   PUBMED   26871637
REFERENCE   4  (bases 1 to 3206)
  AUTHORS   Zeng,W., Yuan,W., Wang,Y., Jiao,W., Zhu,Y., Huang,C., Li,D., Li,Y.,
            Zhu,C., Wu,X. and Liu,M.
  TITLE     Expression of a novel member of sorting nexin gene family, SNX-L,
            in human liver development
  JOURNAL   Biochem Biophys Res Commun 299 (4), 542-548 (2002)
   PUBMED   12459172
  REMARK    GeneRIF: Data suggest that human sorting nexin-L (SNX-L) may be a
            regulatory gene involved in receptor protein degradation during
            embryonic liver development.
REFERENCE   5  (bases 1 to 3206)
  AUTHORS   Worby,C.A. and Dixon,J.E.
  TITLE     Sorting out the cellular functions of sorting nexins
  JOURNAL   Nat Rev Mol Cell Biol 3 (12), 919-931 (2002)
   PUBMED   12461558
  REMARK    Review article
            Erratum:[Nat Rev Mol Cell Biol. 2003 Feb;4(2):156.]
REFERENCE   6  (bases 1 to 3206)
  AUTHORS   Deloukas,P., Matthews,L.H., Ashurst,J., Burton,J., Gilbert,J.G.,
            Jones,M., Stavrides,G., Almeida,J.P., Babbage,A.K., Bagguley,C.L.,
            Bailey,J., Barlow,K.F., Bates,K.N., Beard,L.M., Beare,D.M.,
            Beasley,O.P., Bird,C.P., Blakey,S.E., Bridgeman,A.M., Brown,A.J.,
            Buck,D., Burrill,W., Butler,A.P., Carder,C., Carter,N.P.,
            Chapman,J.C., Clamp,M., Clark,G., Clark,L.N., Clark,S.Y.,
            Clee,C.M., Clegg,S., Cobley,V.E., Collier,R.E., Connor,R.,
            Corby,N.R., Coulson,A., Coville,G.J., Deadman,R., Dhami,P.,
            Dunn,M., Ellington,A.G., Frankland,J.A., Fraser,A., French,L.,
            Garner,P., Grafham,D.V., Griffiths,C., Griffiths,M.N., Gwilliam,R.,
            Hall,R.E., Hammond,S., Harley,J.L., Heath,P.D., Ho,S., Holden,J.L.,
            Howden,P.J., Huckle,E., Hunt,A.R., Hunt,S.E., Jekosch,K.,
            Johnson,C.M., Johnson,D., Kay,M.P., Kimberley,A.M., King,A.,
            Knights,A., Laird,G.K., Lawlor,S., Lehvaslaiho,M.H., Leversha,M.,
            Lloyd,C., Lloyd,D.M., Lovell,J.D., Marsh,V.L., Martin,S.L.,
            McConnachie,L.J., McLay,K., McMurray,A.A., Milne,S., Mistry,D.,
            Moore,M.J., Mullikin,J.C., Nickerson,T., Oliver,K., Parker,A.,
            Patel,R., Pearce,T.A., Peck,A.I., Phillimore,B.J.,
            Prathalingam,S.R., Plumb,R.W., Ramsay,H., Rice,C.M., Ross,M.T.,
            Scott,C.E., Sehra,H.K., Shownkeen,R., Sims,S., Skuce,C.D.,
            Smith,M.L., Soderlund,C., Steward,C.A., Sulston,J.E., Swann,M.,
            Sycamore,N., Taylor,R., Tee,L., Thomas,D.W., Thorpe,A., Tracey,A.,
            Tromans,A.C., Vaudin,M., Wall,M., Wallis,J.M., Whitehead,S.L.,
            Whittaker,P., Willey,D.L., Williams,L., Williams,S.A., Wilming,L.,
            Wray,P.W., Hubbard,T., Durbin,R.M., Bentley,D.R., Beck,S. and
            Rogers,J.
  TITLE     The DNA sequence and comparative analysis of human chromosome 20
  JOURNAL   Nature 414 (6866), 865-871 (2001)
   PUBMED   11780052
REFERENCE   7  (bases 1 to 3206)
  AUTHORS   Xu,Y., Seet,L.F., Hanson,B. and Hong,W.
  TITLE     The Phox homology (PX) domain, a new player in phosphoinositide
            signalling
  JOURNAL   Biochem J 360 (Pt 3), 513-530 (2001)
   PUBMED   11736640
  REMARK    Review article
REFERENCE   8  (bases 1 to 3206)
  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
COMMENT     REVIEWED REFSEQ: This record has been curated by NCBI staff. The
            reference sequence was derived from AL008726.3 and KF456922.1.
            
            On Nov 23, 2018 this sequence version replaced NM_033421.3.
            
            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 does not contain a coiled coil region,
            like some family members. The specific function of this protein has
            not been determined. Multiple transcript variants encoding distinct
            isoforms have been identified for this gene. [provided by RefSeq,
            Jul 2008].
            
            Transcript Variant: This variant (1) encodes the longest isoform a.
            
            Sequence Note: The RefSeq transcript and protein were derived from
            genomic sequence to make the sequence consistent with the reference
            genome assembly. The genomic coordinates used for the transcript
            record were based on alignments.
            
            ##Evidence-Data-START##
            Transcript exon combination :: SRR3476690.519417.1, AF523834.1
                                           [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA1968189, SAMEA1968540
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000491381.6/ ENSP00000418593.1
            RefSeq Select criteria :: based on conservation, longest protein
            ##RefSeq-Attributes-END##
            COMPLETENESS: full length.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-142               AL008726.3         6195-6336
            143-410             AL008726.3         6597-6864
            411-568             AL008726.3         7355-7512
            569-1981            AL008726.3         13035-14447
            1982-2571           KF456922.1         1-590
            2572-3206           AL008726.3         15038-15672
FEATURES             Location/Qualifiers
     source          1..3206
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="20"
                     /map="20q13.12"
     gene            1..3206
                     /gene="SNX21"
                     /gene_synonym="C20orf161; dJ337O18.4; PP3993; SNX-L; SNXL"
                     /note="sorting nexin family member 21"
                     /db_xref="GeneID:90203"
                     /db_xref="HGNC:HGNC:16154"
                     /db_xref="MIM:619200"
     exon            1..142
                     /gene="SNX21"
                     /gene_synonym="C20orf161; dJ337O18.4; PP3993; SNX-L; SNXL"
                     /inference="alignment:Splign:2.1.0"
     CDS             122..1243
                     /gene="SNX21"
                     /gene_synonym="C20orf161; dJ337O18.4; PP3993; SNX-L; SNXL"
                     /note="isoform a is encoded by transcript variant 1;
                     sorting nexin L; sorting nexin-21"
                     /codon_start=1
                     /product="sorting nexin-21 isoform a"
                     /protein_id="NP_219489.1"
                     /db_xref="CCDS:CCDS13377.1"
                     /db_xref="GeneID:90203"
                     /db_xref="HGNC:HGNC:16154"
                     /db_xref="MIM:619200"
                     /translation="MHRGTQEGAMASRLLHRLRHALAGDGPGEAAASPEAEQFPESSE
                     LEDDDAEGLSSRLSGTLSFTSAEDDEDDEDEDDEEAGPDQLPLGDGTSGEDAERSPPP
                     DGQWGSQLLARQLQDFWKKSRNTLAPQRLLFEVTSANVVKDPPSKYVLYTLAVIGPGP
                     PDCQPAQISRRYSDFERLHRNLQRQFRGPMAAISFPRKRLRRNFTAETIARRSRAFEQ
                     FLGHLQAVPELRHAPDLQDFFVLPELRRAQSLTCTGLYREALALWANAWQLQAQLGTP
                     SGPDRPLLTLAGLAVCHQELEDPGEARACCEKALQLLGDKSLHPLLAPFLEAHVRLSW
                     RLGLDKRQSEARLQALQEAGLTPTPPPSLKELLIKEVLD"
     exon            143..410
                     /gene="SNX21"
                     /gene_synonym="C20orf161; dJ337O18.4; PP3993; SNX-L; SNXL"
                     /inference="alignment:Splign:2.1.0"
     exon            411..568
                     /gene="SNX21"
                     /gene_synonym="C20orf161; dJ337O18.4; PP3993; SNX-L; SNXL"
                     /inference="alignment:Splign:2.1.0"
     exon            569..3206
                     /gene="SNX21"
                     /gene_synonym="C20orf161; dJ337O18.4; PP3993; SNX-L; SNXL"
                     /inference="alignment:Splign:2.1.0"
     regulatory      1635..1640
                     /regulatory_class="polyA_signal_sequence"
                     /gene="SNX21"
                     /gene_synonym="C20orf161; dJ337O18.4; PP3993; SNX-L; SNXL"
                     /note="hexamer: ATTAAA"
     polyA_site      1654
                     /gene="SNX21"
                     /gene_synonym="C20orf161; dJ337O18.4; PP3993; SNX-L; SNXL"
                     /note="major polyA site"
     regulatory      2372..2377
                     /regulatory_class="polyA_signal_sequence"
                     /gene="SNX21"
                     /gene_synonym="C20orf161; dJ337O18.4; PP3993; SNX-L; SNXL"
                     /note="hexamer: AATAAA"
     polyA_site      2395
                     /gene="SNX21"
                     /gene_synonym="C20orf161; dJ337O18.4; PP3993; SNX-L; SNXL"
                     /note="major polyA site"
     regulatory      2775..2780
                     /regulatory_class="polyA_signal_sequence"
                     /gene="SNX21"
                     /gene_synonym="C20orf161; dJ337O18.4; PP3993; SNX-L; SNXL"
                     /note="hexamer: TATAAA"
     polyA_site      2783
                     /gene="SNX21"
                     /gene_synonym="C20orf161; dJ337O18.4; PP3993; SNX-L; SNXL"
     polyA_site      2811
                     /gene="SNX21"
                     /gene_synonym="C20orf161; dJ337O18.4; PP3993; SNX-L; SNXL"
     regulatory      2991..2996
                     /regulatory_class="polyA_signal_sequence"
                     /gene="SNX21"
                     /gene_synonym="C20orf161; dJ337O18.4; PP3993; SNX-L; SNXL"
                     /note="hexamer: AATACA"
     polyA_site      3011
                     /gene="SNX21"
                     /gene_synonym="C20orf161; dJ337O18.4; PP3993; SNX-L; SNXL"
     regulatory      3185..3190
                     /regulatory_class="polyA_signal_sequence"
                     /gene="SNX21"
                     /gene_synonym="C20orf161; dJ337O18.4; PP3993; SNX-L; SNXL"
                     /note="hexamer: AATACA"
     polyA_site      3206
                     /gene="SNX21"
                     /gene_synonym="C20orf161; dJ337O18.4; PP3993; SNX-L; SNXL"
ORIGIN      
        1 aggaagctgc ccgagcggcg ctctgagcgg cctgagcccg gcggagccct gcagaacccg
       61 gccgacctcc atgggctgcg gggggctgca cccggacccc tggggcgcgg cgcgcccctg
      121 aatgcaccgt gggacgcagg agggtgccat ggcctcccgg ctcctgcacc ggctgcggca
      181 cgccttggcc ggcgacggcc ccggggaggc ggcggccagt ccagaggccg agcagtttcc
      241 ggagagctca gagctggagg acgacgacgc cgagggcctg tcctcccgac tcagcggcac
      301 cctcagcttc accagcgccg aggacgacga ggacgacgag gacgaggacg acgaggaggc
      361 tggccctgac cagctgcccc tcggggatgg gacgtcagga gaagacgcag aacggagccc
      421 cccacctgat gggcagtggg gcagtcagct cctggcgcgg cagctgcagg atttctggaa
      481 gaagtcccgg aacaccttgg caccccagcg gctgctcttc gaagtgacca gcgctaacgt
      541 tgtcaaggac ccgccctcca agtacgtgct ctacaccctc gccgtgatcg gcccaggacc
      601 gccagattgc cagccagccc agatctctcg ccgttactcg gactttgagc ggctgcaccg
      661 aaacctgcag cggcaattcc ggggcccaat ggctgccatc tccttccccc gtaagcggct
      721 gcgccggaat tttactgcag agaccattgc ccgccgtagc cgggcctttg agcagttttt
      781 gggtcacctg caggcagtgc ctgagctgcg ccatgccccg gacctgcagg acttcttcgt
      841 gctgccggag ctgcggcggg cacagagcct cacctgtact ggcctctatc gtgaggctct
      901 ggcactctgg gccaatgcct ggcagctgca agcccagctg ggcaccccct ctggcccaga
      961 ccgccccctg ctgaccctgg ctgggctggc cgtgtgccac caggagctgg aagaccctgg
     1021 agaggcccgg gcatgctgtg agaaggccct gcagctgctt ggggacaaga gcctccaccc
     1081 tttgctggca ccctttctgg aggcccatgt ccggctctcc tggcgcctgg gcctggacaa
     1141 acgtcaatca gaggctcggc tccaagccct gcaggaggca ggccttaccc ccacaccacc
     1201 ccccagtctc aaagaattgc tcatcaagga ggtgctggac taacccttgc ctagatttaa
     1261 ggccactgtg aggagagggg ttgccccaga aggcagggga aggacctgat gagaacagaa
     1321 tagctgggag gctgcagagg gtgctgggag cccctagaag ttccaaaaga gaatgtgaag
     1381 cagatcaagg aaacttctgt tgagctaggc tcagggtgag ctttggctgg ggttgccctt
     1441 gtgtagtaca gggaagtctg acacagcctc tccagcctat aaacagccgg ggggctgtgg
     1501 cacaggttgg ggcaatgttc ccttgttggt gggcccccaa gctggcaagg cctcttggct
     1561 gaaggccagg gactctgccc ctggagtcct ggagttaagg gatgaaggca aggctgcagg
     1621 tctggcccag gggaattaaa agccagccac tccagtggta tcagtctctt tattggatgt
     1681 gagggccaaa agggactgta actcctgtct caggaatggg gatagatggg aggttcttga
     1741 agccccaggc gaagctggta cctctggcta cagcttgctc tctgagacct ggggcttcac
     1801 tcggatcacg ccctcctggg cacaggtcac agctaggact ccatcctgac gccacagccg
     1861 cccatggacc agcccccgag agccacctgt gggtgaggtg aagggtgatg atggcctgct
     1921 tcagaacagc caaatacact tttttttttt ttcctgaaac agagtctcac taagttgcca
     1981 ggctggtctc aagcgcctgg gttcaaggga tcctcccgcc tcagcctcct gagcagctgg
     2041 gattacaggc gcacatcacc atgcccaacc tccaagtgga cttcttgcaa agggtctggc
     2101 ccagggcagg gctgccccac acaagggtgc actgagtgtc gtggctgctc caaatgcccc
     2161 ttcatgagct tattatggac cgtcattgag gggtaactcc tcccacagga accccagttg
     2221 acagtttaaa agcactttca cacctctcct cgcttcctca aaaagatcac agagggagga
     2281 gctctgagaa cagtctcctt caacagctcg gccaagcaga actgctgtac ctctgaccac
     2341 ttgtgttagg aaaactatcg gctccctgta taataaatca agccaggtcc tccaagtggt
     2401 aattcatgaa aaatatcccc actaccacca ccaaggggaa gaaaggactc agaagagagg
     2461 acttgaggcc atgaggtctg gcctcttccc tccccatctg gagactcttt ctcccttgct
     2521 ggctttgggc ccaagtttga tgtttatgag gatgattgct ggtttccctt acacatagca
     2581 gagctcactc agttctcaca gtagccaaat gaagcagtta tgtgttgtcc agttttccag
     2641 accaggactg aaatccagag agggtcagga atttggcccc atgatgaagc caaatctgaa
     2701 cccatgtcct cacttcaagg ttatcaatct tggattgtga tgctattggt acttgagaat
     2761 accccttatc tgagtataaa gaatccttga gttttgtcct tggtttatca agcaaagctt
     2821 ttcttcattt gaaatgtact cccttggaaa ggaggtcagg gttctgaagc tagacattga
     2881 tgaacgagtc ttgtttctct cccctgcaag gaaggtccaa gcaggccctt agggaccact
     2941 gaatgccccg atcccaatca ggttaatcag aatcacttag agaacttaaa aatacagttt
     3001 cctggacctt atccaagacc tactgagtga gaatcttgag ggtggaatca gaatctattt
     3061 tgaaaaggca tccccaaatg gcagtctgat ggactgcggg tttggatacc actgctgtaa
     3121 tgtaaccctc tttgtttaga tgaggaaact gaggttcaga tggaagatat gatttgccta
     3181 ttgtaataca aagaatctga actggt
//
