LOCUS       NM_003695                749 bp    mRNA    linear   PRI 07-APR-2024
DEFINITION  Homo sapiens lymphocyte antigen 6 family member D (LY6D), mRNA.
ACCESSION   NM_003695
VERSION     NM_003695.3
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 749)
  AUTHORS   Duan,J., Wang,Y., Chen,Y., Wang,Y., Li,Q., Liu,J., Fu,C., Cao,C.,
            Cong,Z. and Su,M.
  TITLE     Silencing LY6D Expression Inhibits Colon Cancer in Xenograft Mice
            and Regulates Colon Cancer Stem Cells' Proliferation, Stemness,
            Invasion, and Apoptosis via the MAPK Pathway
  JOURNAL   Molecules 28 (23), 7776 (2023)
   PUBMED   38067506
  REMARK    GeneRIF: Silencing LY6D Expression Inhibits Colon Cancer in
            Xenograft Mice and Regulates Colon Cancer Stem Cells'
            Proliferation, Stemness, Invasion, and Apoptosis via the MAPK
            Pathway.
            Publication Status: Online-Only
REFERENCE   2  (bases 1 to 749)
  AUTHORS   Liu,Q., Song,X., Liu,Z. and Yu,Z.
  TITLE     Investigation of Candidate Genes and Pathways in Basal/TNBC
            Patients by Integrated Analysis
  JOURNAL   Technol Cancer Res Treat 20, 15330338211019506 (2021)
   PUBMED   34184566
  REMARK    GeneRIF: Investigation of Candidate Genes and Pathways in
            Basal/TNBC Patients by Integrated Analysis.
REFERENCE   3  (bases 1 to 749)
  AUTHORS   Nagano,T., Iwasaki,T., Onishi,K., Awai,Y., Terachi,A., Kuwaba,S.,
            Asano,S., Katasho,R., Nagai,K., Nakashima,A., Kikkawa,U. and
            Kamada,S.
  TITLE     LY6D-induced macropinocytosis as a survival mechanism of senescent
            cells
  JOURNAL   J Biol Chem 296, 100049 (2021)
   PUBMED   33168631
  REMARK    GeneRIF: LY6D-induced macropinocytosis as a survival mechanism of
            senescent cells.
REFERENCE   4  (bases 1 to 749)
  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 749)
  AUTHORS   Barros-Silva,J.D., Linn,D.E., Steiner,I., Guo,G., Ali,A.,
            Pakula,H., Ashton,G., Peset,I., Brown,M., Clarke,N.W.,
            Bronson,R.T., Yuan,G.C., Orkin,S.H., Li,Z. and Baena,E.
  TITLE     Single-Cell Analysis Identifies LY6D as a Marker Linking
            Castration-Resistant Prostate Luminal Cells to Prostate Progenitors
            and Cancer
  JOURNAL   Cell Rep 25 (12), 3504-3518 (2018)
   PUBMED   30566873
  REMARK    GeneRIF: LY6D may serve as a prognostic maker for advanced prostate
            cancer.
REFERENCE   6  (bases 1 to 749)
  AUTHORS   Wu,C., Ma,M.H., Brown,K.R., Geisler,M., Li,L., Tzeng,E., Jia,C.Y.,
            Jurisica,I. and Li,S.S.
  TITLE     Systematic identification of SH3 domain-mediated human
            protein-protein interactions by peptide array target screening
  JOURNAL   Proteomics 7 (11), 1775-1785 (2007)
   PUBMED   17474147
REFERENCE   7  (bases 1 to 749)
  AUTHORS   Zhang,Z. and Henzel,W.J.
  TITLE     Signal peptide prediction based on analysis of experimentally
            verified cleavage sites
  JOURNAL   Protein Sci 13 (10), 2819-2824 (2004)
   PUBMED   15340161
REFERENCE   8  (bases 1 to 749)
  AUTHORS   Shan,X., Bourdeau,A., Rhoton,A., Wells,D.E., Cohen,E.H.,
            Landgraf,B.E. and Palfree,R.G.
  TITLE     Characterization and mapping to human chromosome 8q24.3 of
            Ly-6-related gene 9804 encoding an apparent homologue of mouse
            TSA-1
  JOURNAL   J Immunol 160 (1), 197-208 (1998)
   PUBMED   9551972
REFERENCE   9  (bases 1 to 749)
  AUTHORS   Brakenhoff,R.H., van Dijk,M., Rood-Knippels,E.M. and Snow,G.B.
  TITLE     A gain of novel tissue specificity in the human Ly-6 gene E48
  JOURNAL   J Immunol 159 (10), 4879-4886 (1997)
   PUBMED   9366413
REFERENCE   10 (bases 1 to 749)
  AUTHORS   Brakenhoff,R.H., Gerretsen,M., Knippels,E.M., van Dijk,M., van
            Essen,H., Weghuis,D.O., Sinke,R.J., Snow,G.B. and van Dongen,G.A.
  TITLE     The human E48 antigen, highly homologous to the murine Ly-6 antigen
            ThB, is a GPI-anchored molecule apparently involved in keratinocyte
            cell-cell adhesion
  JOURNAL   J Cell Biol 129 (6), 1677-1689 (1995)
   PUBMED   7790363
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            BC031330.1, BC022806.1 and BU689475.1.
            
            On Nov 23, 2018 this sequence version replaced NM_003695.2.
            
            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 :: BM018933.1, BC031330.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA2156670, SAMEA2158800
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000301263.5/ ENSP00000301263.4
            RefSeq Select criteria :: based on single protein-coding transcript
            ##RefSeq-Attributes-END##
            COMPLETENESS: full length.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-50                BC031330.1         54-103
            51-683              BC022806.1         31-663
            684-749             BU689475.1         17-82               c
FEATURES             Location/Qualifiers
     source          1..749
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="8"
                     /map="8q24.3"
     gene            1..749
                     /gene="LY6D"
                     /gene_synonym="E48; Ly-6D"
                     /note="lymphocyte antigen 6 family member D"
                     /db_xref="GeneID:8581"
                     /db_xref="HGNC:HGNC:13348"
                     /db_xref="MIM:606204"
     exon            1..75
                     /gene="LY6D"
                     /gene_synonym="E48; Ly-6D"
                     /inference="alignment:Splign:2.1.0"
     CDS             24..410
                     /gene="LY6D"
                     /gene_synonym="E48; Ly-6D"
                     /note="e48 antigen; lymphocyte antigen 6D; lymphocyte
                     antigen 6 complex, locus D"
                     /codon_start=1
                     /product="lymphocyte antigen 6D precursor"
                     /protein_id="NP_003686.1"
                     /db_xref="CCDS:CCDS6390.1"
                     /db_xref="GeneID:8581"
                     /db_xref="HGNC:HGNC:13348"
                     /db_xref="MIM:606204"
                     /translation="MRTALLLLAALAVATGPALTLRCHVCTSSSNCKHSVVCPASSRF
                     CKTTNTVEPLRGNLVKKDCAESCTPSYTLQGQVSSGTSSTQCCQEDLCNEKLHNAAPT
                     RTALAHSALSLGLALSLLAVILAPSL"
     exon            76..174
                     /gene="LY6D"
                     /gene_synonym="E48; Ly-6D"
                     /inference="alignment:Splign:2.1.0"
     exon            175..749
                     /gene="LY6D"
                     /gene_synonym="E48; Ly-6D"
                     /inference="alignment:Splign:2.1.0"
     regulatory      731..736
                     /regulatory_class="polyA_signal_sequence"
                     /gene="LY6D"
                     /gene_synonym="E48; Ly-6D"
                     /note="hexamer: GATAAA"
     polyA_site      749
                     /gene="LY6D"
                     /gene_synonym="E48; Ly-6D"
                     /note="major polyA site"
ORIGIN      
        1 actgctccca gacgacatca gagatgagga cagcattgct gctccttgca gccctggctg
       61 tggctacagg gccagccctt accctgcgct gccacgtgtg caccagctcc agcaactgca
      121 agcattctgt ggtctgcccg gccagctctc gcttctgcaa gaccacgaac acagtggagc
      181 ctctgagggg gaatctggtg aagaaggact gtgcggagtc gtgcacaccc agctacaccc
      241 tgcaaggcca ggtcagcagc ggcaccagct ccacccagtg ctgccaggag gacctgtgca
      301 atgagaagct gcacaacgct gcacccaccc gcaccgccct cgcccacagt gccctcagcc
      361 tggggctggc cctgagcctc ctggccgtca tcttagcccc cagcctgtga ccttcccccc
      421 agggaaggcc cctcatgcct ttccttccct ttctctgggg attccacacc tctcttcccc
      481 agccgcaacg ggggtgccag gagccccagg ctgagggctt ccccgaaagt ctgggaccag
      541 gtccaggtgg gcatggaatg ctgatgactt ggagcaggcc ccacagaccc cacagaggat
      601 gaagccaccc cacagaggat gcagccccca gctgcatgga aggtggagga cagaagccct
      661 gtggatcccc ggatttcaca ctccttctgt tttgttgccg tttatttttg tactcaaatc
      721 tctacatgga gataaatgat ttaaaccag
//
