LOCUS       NM_001039707            2391 bp    mRNA    linear   PRI 19-SEP-2024
DEFINITION  Homo sapiens endosome associated trafficking regulator 1 (ENTR1),
            transcript variant 1, mRNA.
ACCESSION   NM_001039707
VERSION     NM_001039707.2
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 2391)
  AUTHORS   Zhang,Q., Dai,Z., Chen,Y., Li,Q., Guo,Y., Zhu,Z., Tu,M., Cai,L. and
            Lu,X.
  TITLE     Endosome associated trafficking regulator 1 promotes tumor growth
            and invasion of glioblastoma multiforme via inhibiting TNF
            signaling pathway
  JOURNAL   J Neurooncol 166 (1), 113-127 (2024)
   PUBMED   38191954
  REMARK    GeneRIF: Endosome associated trafficking regulator 1 promotes tumor
            growth and invasion of glioblastoma multiforme via inhibiting TNF
            signaling pathway.
REFERENCE   2  (bases 1 to 2391)
  AUTHORS   Thiebaut,R., Esmiol,S., Lecine,P., Mahfouz,B., Hermant,A.,
            Nicoletti,C., Parnis,S., Perroy,J., Borg,J.P., Pascoe,L.,
            Hugot,J.P. and Ollendorff,V.
  TITLE     Characterization and Genetic Analyses of New Genes Coding for NOD2
            Interacting Proteins
  JOURNAL   PLoS One 11 (11), e0165420 (2016)
   PUBMED   27812135
  REMARK    Publication Status: Online-Only
REFERENCE   3  (bases 1 to 2391)
  AUTHORS   Yu,F., Sharma,S., Skowronek,A. and Erdmann,K.S.
  TITLE     The serologically defined colon cancer antigen-3 (SDCCAG3) is
            involved in the regulation of ciliogenesis
  JOURNAL   Sci Rep 6, 35399 (2016)
   PUBMED   27767179
  REMARK    GeneRIF: SDCCAG3 has a role in ciliogenesis and in localization of
            cargo to primary cilia
            Publication Status: Online-Only
REFERENCE   4  (bases 1 to 2391)
  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   5  (bases 1 to 2391)
  AUTHORS   McGough,I.J., Steinberg,F., Gallon,M., Yatsu,A., Ohbayashi,N.,
            Heesom,K.J., Fukuda,M. and Cullen,P.J.
  TITLE     Identification of molecular heterogeneity in
            SNX27-retromer-mediated endosome-to-plasma-membrane recycling
  JOURNAL   J Cell Sci 127 (Pt 22), 4940-4953 (2014)
   PUBMED   25278552
REFERENCE   6  (bases 1 to 2391)
  AUTHORS   Hagemann,N., Ackermann,N., Christmann,J., Brier,S., Yu,F. and
            Erdmann,K.S.
  TITLE     The serologically defined colon cancer antigen-3 interacts with the
            protein tyrosine phosphatase PTPN13 and is involved in the
            regulation of cytokinesis
  JOURNAL   Oncogene 32 (39), 4602-4613 (2013)
   PUBMED   23108400
  REMARK    GeneRIF: The novel endosomal protein SDCCAG3 forms a complex with
            PTPN13 & interacts with GIT1.  Interaction of SDCCAG3 with PTPN13
            is mediated by the PTPN13 FERM domain & the SDCCAG3 N-terminus.
            SDCCAG3 expression levels are elevated in colon cancers.
REFERENCE   7  (bases 1 to 2391)
  AUTHORS   Jostins,L., Ripke,S., Weersma,R.K., Duerr,R.H., McGovern,D.P.,
            Hui,K.Y., Lee,J.C., Schumm,L.P., Sharma,Y., Anderson,C.A.,
            Essers,J., Mitrovic,M., Ning,K., Cleynen,I., Theatre,E.,
            Spain,S.L., Raychaudhuri,S., Goyette,P., Wei,Z., Abraham,C.,
            Achkar,J.P., Ahmad,T., Amininejad,L., Ananthakrishnan,A.N.,
            Andersen,V., Andrews,J.M., Baidoo,L., Balschun,T., Bampton,P.A.,
            Bitton,A., Boucher,G., Brand,S., Buning,C., Cohain,A., Cichon,S.,
            D'Amato,M., De Jong,D., Devaney,K.L., Dubinsky,M., Edwards,C.,
            Ellinghaus,D., Ferguson,L.R., Franchimont,D., Fransen,K.,
            Gearry,R., Georges,M., Gieger,C., Glas,J., Haritunians,T., Hart,A.,
            Hawkey,C., Hedl,M., Hu,X., Karlsen,T.H., Kupcinskas,L.,
            Kugathasan,S., Latiano,A., Laukens,D., Lawrance,I.C., Lees,C.W.,
            Louis,E., Mahy,G., Mansfield,J., Morgan,A.R., Mowat,C., Newman,W.,
            Palmieri,O., Ponsioen,C.Y., Potocnik,U., Prescott,N.J.,
            Regueiro,M., Rotter,J.I., Russell,R.K., Sanderson,J.D., Sans,M.,
            Satsangi,J., Schreiber,S., Simms,L.A., Sventoraityte,J.,
            Targan,S.R., Taylor,K.D., Tremelling,M., Verspaget,H.W., De Vos,M.,
            Wijmenga,C., Wilson,D.C., Winkelmann,J., Xavier,R.J., Zeissig,S.,
            Zhang,B., Zhang,C.K., Zhao,H., Silverberg,M.S., Annese,V.,
            Hakonarson,H., Brant,S.R., Radford-Smith,G., Mathew,C.G.,
            Rioux,J.D., Schadt,E.E., Daly,M.J., Franke,A., Parkes,M.,
            Vermeire,S., Barrett,J.C. and Cho,J.H.
  CONSRTM   International IBD Genetics Consortium (IIBDGC)
  TITLE     Host-microbe interactions have shaped the genetic architecture of
            inflammatory bowel disease
  JOURNAL   Nature 491 (7422), 119-124 (2012)
   PUBMED   23128233
REFERENCE   8  (bases 1 to 2391)
  AUTHORS   Anderson,C.A., Boucher,G., Lees,C.W., Franke,A., D'Amato,M.,
            Taylor,K.D., Lee,J.C., Goyette,P., Imielinski,M., Latiano,A.,
            Lagace,C., Scott,R., Amininejad,L., Bumpstead,S., Baidoo,L.,
            Baldassano,R.N., Barclay,M., Bayless,T.M., Brand,S., Buning,C.,
            Colombel,J.F., Denson,L.A., De Vos,M., Dubinsky,M., Edwards,C.,
            Ellinghaus,D., Fehrmann,R.S., Floyd,J.A., Florin,T.,
            Franchimont,D., Franke,L., Georges,M., Glas,J., Glazer,N.L.,
            Guthery,S.L., Haritunians,T., Hayward,N.K., Hugot,J.P., Jobin,G.,
            Laukens,D., Lawrance,I., Lemann,M., Levine,A., Libioulle,C.,
            Louis,E., McGovern,D.P., Milla,M., Montgomery,G.W., Morley,K.I.,
            Mowat,C., Ng,A., Newman,W., Ophoff,R.A., Papi,L., Palmieri,O.,
            Peyrin-Biroulet,L., Panes,J., Phillips,A., Prescott,N.J.,
            Proctor,D.D., Roberts,R., Russell,R., Rutgeerts,P., Sanderson,J.,
            Sans,M., Schumm,P., Seibold,F., Sharma,Y., Simms,L.A.,
            Seielstad,M., Steinhart,A.H., Targan,S.R., van den Berg,L.H.,
            Vatn,M., Verspaget,H., Walters,T., Wijmenga,C., Wilson,D.C.,
            Westra,H.J., Xavier,R.J., Zhao,Z.Z., Ponsioen,C.Y., Andersen,V.,
            Torkvist,L., Gazouli,M., Anagnou,N.P., Karlsen,T.H., Kupcinskas,L.,
            Sventoraityte,J., Mansfield,J.C., Kugathasan,S., Silverberg,M.S.,
            Halfvarson,J., Rotter,J.I., Mathew,C.G., Griffiths,A.M., Gearry,R.,
            Ahmad,T., Brant,S.R., Chamaillard,M., Satsangi,J., Cho,J.H.,
            Schreiber,S., Daly,M.J., Barrett,J.C., Parkes,M., Annese,V.,
            Hakonarson,H., Radford-Smith,G., Duerr,R.H., Vermeire,S.,
            Weersma,R.K. and Rioux,J.D.
  TITLE     Meta-analysis identifies 29 additional ulcerative colitis risk
            loci, increasing the number of confirmed associations to 47
  JOURNAL   Nat Genet 43 (3), 246-252 (2011)
   PUBMED   21297633
  REMARK    Erratum:[Nat Genet. 2011 Sep;43(9):919]
REFERENCE   9  (bases 1 to 2391)
  AUTHORS   Neznanov,N., Neznanova,L., Angres,B. and Gudkov,A.V.
  TITLE     Serologically defined colon cancer antigen 3 is necessary for the
            presentation of TNF receptor 1 on cell surface
  JOURNAL   DNA Cell Biol 24 (12), 777-785 (2005)
   PUBMED   16332174
  REMARK    GeneRIF: SDCCAG3 is important for protein trafficking and
            presentation of TNFR1 on the cell surface.
REFERENCE   10 (bases 1 to 2391)
  AUTHORS   Scanlan,M.J., Chen,Y.T., Williamson,B., Gure,A.O., Stockert,E.,
            Gordan,J.D., Tureci,O., Sahin,U., Pfreundschuh,M. and Old,L.J.
  TITLE     Characterization of human colon cancer antigens recognized by
            autologous antibodies
  JOURNAL   Int J Cancer 76 (5), 652-658 (1998)
   PUBMED   9610721
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            AL592301.14, BM549484.1, BQ723499.1, AL559847.3, AK001296.1,
            AF039688.1, BC014515.1 and AA742964.1.
            
            On Nov 22, 2018 this sequence version replaced NM_001039707.1.
            
            Transcript Variant: This variant (1) represents the longest
            transcript and encodes the longest isoform (1).
            
            ##Evidence-Data-START##
            Transcript exon combination :: SRR7346977.1004796.1,
                                           ERR3218371.262873.1 [ECO:0000332]
            RNAseq introns              :: mixed sample support SAMEA1965299,
                                           SAMEA1966682 [ECO:0006172]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000357365.8/ ENSP00000349929.3
            RefSeq Select criteria :: based on conservation, expression
            ##RefSeq-Attributes-END##
            COMPLETENESS: full length.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-12                AL592301.14        54227-54238         c
            13-29               BM549484.1         1-17
            30-237              BQ723499.1         25-232
            238-1027            AL559847.3         160-949
            1028-1338           AK001296.1         576-886
            1339-2087           AF039688.1         395-1143
            2088-2388           BC014515.1         1874-2174
            2389-2391           AA742964.1         12-14               c
FEATURES             Location/Qualifiers
     source          1..2391
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="9"
                     /map="9q34.3"
     gene            1..2391
                     /gene="ENTR1"
                     /gene_synonym="NY-CO-3; SDCCAG3; SDDAG3"
                     /note="endosome associated trafficking regulator 1"
                     /db_xref="GeneID:10807"
                     /db_xref="HGNC:HGNC:10667"
                     /db_xref="MIM:618289"
     exon            1..287
                     /gene="ENTR1"
                     /gene_synonym="NY-CO-3; SDCCAG3; SDDAG3"
                     /inference="alignment:Splign:2.1.0"
     CDS             218..1525
                     /gene="ENTR1"
                     /gene_synonym="NY-CO-3; SDCCAG3; SDDAG3"
                     /note="isoform 1 is encoded by transcript variant 1;
                     antigen NY-CO-3; serologically defined colon cancer
                     antigen 3"
                     /codon_start=1
                     /product="endosome-associated-trafficking regulator 1
                     isoform 1"
                     /protein_id="NP_001034796.1"
                     /db_xref="CCDS:CCDS43904.1"
                     /db_xref="GeneID:10807"
                     /db_xref="HGNC:HGNC:10667"
                     /db_xref="MIM:618289"
                     /translation="MSGYQRRPGATPLSRARSLAIPDAPAFYERRSCLPQLNCERPHG
                     RDLDSPFFGIRPAFMCYVPSPVLASVGDTDFGYGKGKCSKQSPSGAHGTHFGDDRFED
                     LEEANPFSFREFLKTKNLGLSKEDPASRIYAKEASRHSLGLDHNSPPSQTGGYGLEYQ
                     QPFFEDPTGAGDLLDEEEDEDTGWSGAYLPSAIEQTHPERVPAGTSPCSTYLSFFSTP
                     SELAGPESLPSWALSDTDSRVSPASPAGSPSADFAVHGESLGDRHLRTLQISYDALKD
                     ENSKLRRKLNEVQSFSEAQTEMVRTLERKLEAKMIKEESDYHDLESVVQQVEQNLELM
                     TKRAVKAENHVVKLKQEISLLQAQVSNFQRENEALRCGQGASLTVVKQNADVALQNLR
                     VVMNSAQASIKQLVSGAETLNLVAEILKSIDRISEVKDEEEDS"
     exon            288..437
                     /gene="ENTR1"
                     /gene_synonym="NY-CO-3; SDCCAG3; SDDAG3"
                     /inference="alignment:Splign:2.1.0"
     exon            438..506
                     /gene="ENTR1"
                     /gene_synonym="NY-CO-3; SDCCAG3; SDDAG3"
                     /inference="alignment:Splign:2.1.0"
     exon            507..619
                     /gene="ENTR1"
                     /gene_synonym="NY-CO-3; SDCCAG3; SDDAG3"
                     /inference="alignment:Splign:2.1.0"
     exon            620..1036
                     /gene="ENTR1"
                     /gene_synonym="NY-CO-3; SDCCAG3; SDDAG3"
                     /inference="alignment:Splign:2.1.0"
     exon            1037..1110
                     /gene="ENTR1"
                     /gene_synonym="NY-CO-3; SDCCAG3; SDDAG3"
                     /inference="alignment:Splign:2.1.0"
     exon            1111..1222
                     /gene="ENTR1"
                     /gene_synonym="NY-CO-3; SDCCAG3; SDDAG3"
                     /inference="alignment:Splign:2.1.0"
     exon            1223..1285
                     /gene="ENTR1"
                     /gene_synonym="NY-CO-3; SDCCAG3; SDDAG3"
                     /inference="alignment:Splign:2.1.0"
     exon            1286..1425
                     /gene="ENTR1"
                     /gene_synonym="NY-CO-3; SDCCAG3; SDDAG3"
                     /inference="alignment:Splign:2.1.0"
     exon            1426..2391
                     /gene="ENTR1"
                     /gene_synonym="NY-CO-3; SDCCAG3; SDDAG3"
                     /inference="alignment:Splign:2.1.0"
     regulatory      2369..2374
                     /regulatory_class="polyA_signal_sequence"
                     /gene="ENTR1"
                     /gene_synonym="NY-CO-3; SDCCAG3; SDDAG3"
                     /note="hexamer: AATAAA"
     polyA_site      2391
                     /gene="ENTR1"
                     /gene_synonym="NY-CO-3; SDCCAG3; SDDAG3"
                     /note="major polyA site"
ORIGIN      
        1 ctccccctcg ccgacggccc aaggcgttca ggcacgcgct ttcggtgctc ggagcggaag
       61 cagcggcgag aggctcggag gcgcgggggc ggccgagcgg cgggcgacgg gggcgggcga
      121 cgggggcggg cgacgcgggc cgcggcacgg gcggagccgg ggccatggag ccgccgctgc
      181 cgggctaggc aggtcgtgcc ccgccgggcc ggcggcgatg tcgggctacc agcgccgccc
      241 gggcgccacc ccgctgtccc gagcccggag cctcgccatt cccgacgctc cagcgttcta
      301 tgagcgccgg tcttgtctcc cccagctaaa ttgtgagcgc ccccatggca gggacctgga
      361 ctcccccttc ttcggcattc ggccggcctt tatgtgctat gtgcccagcc cggtgctggc
      421 ttccgtggga gacacagatt ttggctatgg aaaggggaaa tgttctaagc agagcccgtc
      481 aggagcccac gggacacatt ttggagatga cagatttgaa gatctggaag aggcaaatcc
      541 attctctttt agagagtttc tgaagaccaa gaacctcggc ctctcgaaag aggatccggc
      601 cagcagaatt tatgcaaagg aagcctcgag gcattccctg ggacttgacc acaactcccc
      661 accctcccaa accggcgggt atggcctgga gtatcagcag ccatttttcg aggatccgac
      721 aggggctggt gacctcctgg atgaggagga ggatgaggac accggatgga gtggggccta
      781 cctgccgtcc gccatcgagc agactcaccc cgagagggtc cctgccggca cgtcgccctg
      841 cagcacatac ctttcctttt tctccacccc gtcggagctg gcagggcctg agtctctgcc
      901 ctcgtgggcg ttgagtgaca ctgattctcg cgtgtctccg gcctctccgg cagggagtcc
      961 tagcgcagac tttgcggttc atggagagtc tctgggagac aggcacctgc ggacgctgca
     1021 gataagttac gacgcactga aagatgaaaa ttctaagctg agaagaaagc tgaatgaggt
     1081 tcagagcttc tctgaagctc aaacagaaat ggtgaggacg cttgagcgga agttagaagc
     1141 aaaaatgatc aaggaggaaa gcgactacca cgacctggag tcggtggttc agcaggtgga
     1201 gcagaacctg gagctgatga ccaaacgggc tgtaaaggca gaaaaccacg tcgtgaaact
     1261 aaaacaggaa atcagtttgc tccaggcgca ggtctccaac ttccagcgag agaatgaagc
     1321 cctgcggtgc ggccagggtg ccagcctgac cgtggtgaag cagaacgccg acgtggccct
     1381 gcagaacctc cgggtggtca tgaacagtgc acaggcttcc atcaagcaac tggtttccgg
     1441 agctgagaca ctgaatcttg ttgccgaaat ccttaaatct atagacagaa tttctgaagt
     1501 taaagacgag gaggaagact cttgaggacc cctgggtgtt ctcagcatga agctccgtgt
     1561 ataccctgag gtcaccaccg ctcgatctaa atgtgcagtt gtgtccttaa atatgcagtc
     1621 ttcacccaga gtaaagtgtt gatcgcaaga gtccagtgtc gtgccctcag ccagttcttg
     1681 gccaccacaa tgggagcagc cctggccgag ttgtctctgt ggtttctatg cagcccttct
     1741 tggcgaaatt cctgcgatct tatagattct aatgagctct tggaagacat tgtcataaaa
     1801 gccagtgatt ttaagaaaaa gagtggttct ggaatcaatg ttttccagtc ccatcccaga
     1861 acatcagttg taagataagt acaattggtt gtccttgatt tcataagtag aacaaacact
     1921 aaatgtgcct ctgagatggc caccccgggc agggacctgt gccttccgcc gatgctcagg
     1981 gctccctctg gctcccgggt cactcttgtg gccccagtgg gtggtccctg cagtcatggc
     2041 ctgagtgcgc aggggccacc gcgtggctgc tgctgtcctc ctccgggacc cacggggacc
     2101 aaggtcacac gttccgtgct gtgaagctgt ccagatgtgc ctctttggct gggggttctg
     2161 gtggacgttt caagtggcat tttgtacaat gcaggttaga attcaggaat ttcaagtatg
     2221 tgcccgggtc tgtcaggtcc cagttgcctt tctgacggcc cccctcagag ggacggcgat
     2281 gagcactaaa tgcttttttg actattttcc tatagatttt ttttaaaact tttttttcct
     2341 cctgttccaa ttgatagctt tcttatttaa taaattctgt agttcaccgc a
//
