LOCUS       NM_001006946            3335 bp    mRNA    linear   PRI 01-OCT-2024
DEFINITION  Homo sapiens syndecan 1 (SDC1), transcript variant 1, mRNA.
ACCESSION   NM_001006946
VERSION     NM_001006946.2
KEYWORDS    RefSeq.
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 3335)
  AUTHORS   Yoon,T., Ha,J.W., Pyo,J.Y., Ko,E., Ahn,S.S., Song,J.J., Park,Y.B.
            and Lee,S.W.
  TITLE     Serum syndecan1 has the potential to reflect activity at diagnosis
            and predict death during follow-up in patients with ANCA-associated
            vasculitis
  JOURNAL   Arthritis Res Ther 26 (1), 166 (2024)
   PUBMED   39304942
  REMARK    GeneRIF: Serum syndecan1 has the potential to reflect activity at
            diagnosis and predict death during follow-up in patients with
            ANCA-associated vasculitis.
            Publication Status: Online-Only
REFERENCE   2  (bases 1 to 3335)
  AUTHORS   Oguz,Y., Agaoglu,R.T., Ulusoy,C.O., Kurt,D., Ozgurluk,I.,
            Soysal,C., Yilmaz Vural,Z. and Yakut Yucel,K.
  TITLE     The significance of Syndecan 1, a new marker for endothelial
            dysfunction, in cases of fetal growth retardation
  JOURNAL   Am J Reprod Immunol 91 (5), e13858 (2024)
   PUBMED   38762781
  REMARK    GeneRIF: The significance of Syndecan 1, a new marker for
            endothelial dysfunction, in cases of fetal growth retardation.
REFERENCE   3  (bases 1 to 3335)
  AUTHORS   Lu,L., Zhu,M., Wu,Q., Sun,Z., Chen,X. and Miao,C.
  TITLE     Sirt7/HIC1 complex participates in hyperglycaemia-mediated EndMT
            via modulation of SDC1 expression in diabetic kidney disease and
            metabolic memory
  JOURNAL   J Cell Mol Med 28 (9), e18336 (2024)
   PUBMED   38686489
  REMARK    GeneRIF: Sirt7/HIC1 complex participates in hyperglycaemia-mediated
            EndMT via modulation of SDC1 expression in diabetic kidney disease
            and metabolic memory.
REFERENCE   4  (bases 1 to 3335)
  AUTHORS   Rajan,R., Hanifah,M., Mariappan,V., Anand,M. and Balakrishna
            Pillai,A.
  TITLE     Soluble Endoglin and Syndecan-1 levels predicts the clinical
            outcome in COVID-19 patients
  JOURNAL   Microb Pathog 188, 106558 (2024)
   PUBMED   38272329
  REMARK    GeneRIF: Soluble Endoglin and Syndecan-1 levels predicts the
            clinical outcome in COVID-19 patients.
REFERENCE   5  (bases 1 to 3335)
  AUTHORS   Kelly,E.J., Oliver,M.A., Carney,B.C., Kolachana,S., Moffatt,L.T.
            and Shupp,J.W.
  TITLE     Neutrophil Extracellular Traps Are Induced by Coronavirus 2019
            Disease-Positive Patient Plasma and Persist Longitudinally: A
            Possible Link to Endothelial Dysfunction as Measured by Syndecan-1
  JOURNAL   Surg Infect (Larchmt) 24 (10), 887-896 (2023)
   PUBMED   38011327
  REMARK    GeneRIF: Neutrophil Extracellular Traps Are Induced by Coronavirus
            2019 Disease-Positive Patient Plasma and Persist Longitudinally: A
            Possible Link to Endothelial Dysfunction as Measured by Syndecan-1.
REFERENCE   6  (bases 1 to 3335)
  AUTHORS   Vainio,S., Jalkanen,M., Bernfield,M. and Saxen,L.
  TITLE     Transient expression of syndecan in mesenchymal cell aggregates of
            the embryonic kidney
  JOURNAL   Dev Biol 152 (2), 221-232 (1992)
   PUBMED   1644217
REFERENCE   7  (bases 1 to 3335)
  AUTHORS   Lories,V., Cassiman,J.J., Van den Berghe,H. and David,G.
  TITLE     Differential expression of cell surface heparan sulfate
            proteoglycans in human mammary epithelial cells and lung
            fibroblasts
  JOURNAL   J Biol Chem 267 (2), 1116-1122 (1992)
   PUBMED   1339431
REFERENCE   8  (bases 1 to 3335)
  AUTHORS   David,G.
  TITLE     Structural and functional diversity of the heparan sulfate
            proteoglycans
  JOURNAL   Adv Exp Med Biol 313, 69-78 (1992)
   PUBMED   1442271
  REMARK    Review article
REFERENCE   9  (bases 1 to 3335)
  AUTHORS   Kiefer,M.C., Ishihara,M., Swiedler,S.J., Crawford,K., Stephans,J.C.
            and Barr,P.J.
  TITLE     The molecular biology of heparan sulfate fibroblast growth factor
            receptors
  JOURNAL   Ann N Y Acad Sci 638, 167-176 (1991)
   PUBMED   1664683
REFERENCE   10 (bases 1 to 3335)
  AUTHORS   Ala-Kapee,M., Nevanlinna,H., Mali,M., Jalkanen,M. and Schroder,J.
  TITLE     Localization of gene for human syndecan, an integral membrane
            proteoglycan and a matrix receptor, to chromosome 2
  JOURNAL   Somat Cell Mol Genet 16 (5), 501-505 (1990)
   PUBMED   2173154
COMMENT     REVIEWED REFSEQ: This record has been curated by NCBI staff. The
            reference sequence was derived from AC104792.5.
            
            On Aug 13, 2020 this sequence version replaced NM_001006946.1.
            
            Summary: The protein encoded by this gene is a transmembrane (type
            I) heparan sulfate proteoglycan and is a member of the syndecan
            proteoglycan family. The syndecans mediate cell binding, cell
            signaling, and cytoskeletal organization and syndecan receptors are
            required for internalization of the HIV-1 tat protein. The
            syndecan-1 protein functions as an integral membrane protein and
            participates in cell proliferation, cell migration and cell-matrix
            interactions via its receptor for extracellular matrix proteins.
            Altered syndecan-1 expression has been detected in several
            different tumor types. While several transcript variants may exist
            for this gene, the full-length natures of only two have been
            described to date. These two represent the major variants of this
            gene and encode the same protein. [provided by RefSeq, Jul 2008].
            
            Transcript Variant: This variant (1) represents the longer
            transcript.  Variants 1 and 2 encode the same protein.
            
            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 :: SRR14038193.3659708.1,
                                           SRR14038192.3234569.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA2142348, SAMEA2145893
                                           [ECO:0000348]
            ##Evidence-Data-END##
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-214               AC104792.5         40045-40258         c
            215-499             AC104792.5         39585-39869         c
            500-581             AC104792.5         20126-20207         c
            582-1060            AC104792.5         18596-19074         c
            1061-1196           AC104792.5         17870-18005         c
            1197-3335           AC104792.5         15580-17718         c
FEATURES             Location/Qualifiers
     source          1..3335
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="2"
                     /map="2p24.1"
     gene            1..3335
                     /gene="SDC1"
                     /gene_synonym="CD138; SDC; SYND1; syndecan"
                     /note="syndecan 1"
                     /db_xref="GeneID:6382"
                     /db_xref="HGNC:HGNC:10658"
                     /db_xref="MIM:186355"
     exon            1..214
                     /gene="SDC1"
                     /gene_synonym="CD138; SDC; SYND1; syndecan"
                     /inference="alignment:Splign:2.1.0"
     exon            215..499
                     /gene="SDC1"
                     /gene_synonym="CD138; SDC; SYND1; syndecan"
                     /inference="alignment:Splign:2.1.0"
     CDS             434..1366
                     /gene="SDC1"
                     /gene_synonym="CD138; SDC; SYND1; syndecan"
                     /note="syndecan proteoglycan 1; CD138 antigen; heparan
                     sulfate proteoglycan fibroblast growth factor receptor"
                     /codon_start=1
                     /product="syndecan-1 precursor"
                     /protein_id="NP_001006947.2"
                     /db_xref="CCDS:CCDS1697.1"
                     /db_xref="GeneID:6382"
                     /db_xref="HGNC:HGNC:10658"
                     /db_xref="MIM:186355"
                     /translation="MRRAALWLWLCALALSLQPALPQIVATNLPPEDQDGSGDDSDNF
                     SGSGAGALQDITLSQQTPSTWKDTQLLTAIPTSPEPTGLEATAASTSTLPAGEGPKEG
                     EAVVLPEVEPGLTAREQEATPRPRETTQLPTTHLASTTTATTAQEPATSHPHRDMQPG
                     HHETSTPAGPSQADLHTPHTEDGGPSATERAAEDGASSQLPAAEGSGEQDFTFETSGE
                     NTAVVAVEPDRRNQSPVDQGATGASQGLLDRKEVLGGVIAGGLVGLIFAVCLVGFMLY
                     RMKKKDEGSYSLEEPKQANGGAYQKPTKQEEFYA"
     exon            500..581
                     /gene="SDC1"
                     /gene_synonym="CD138; SDC; SYND1; syndecan"
                     /inference="alignment:Splign:2.1.0"
     exon            582..1060
                     /gene="SDC1"
                     /gene_synonym="CD138; SDC; SYND1; syndecan"
                     /inference="alignment:Splign:2.1.0"
     exon            1061..1196
                     /gene="SDC1"
                     /gene_synonym="CD138; SDC; SYND1; syndecan"
                     /inference="alignment:Splign:2.1.0"
     exon            1197..3335
                     /gene="SDC1"
                     /gene_synonym="CD138; SDC; SYND1; syndecan"
                     /inference="alignment:Splign:2.1.0"
     regulatory      2628..2633
                     /regulatory_class="polyA_signal_sequence"
                     /gene="SDC1"
                     /gene_synonym="CD138; SDC; SYND1; syndecan"
                     /note="hexamer: TATAAA"
     polyA_site      2651
                     /gene="SDC1"
                     /gene_synonym="CD138; SDC; SYND1; syndecan"
     regulatory      3308..3313
                     /regulatory_class="polyA_signal_sequence"
                     /gene="SDC1"
                     /gene_synonym="CD138; SDC; SYND1; syndecan"
                     /note="hexamer: AATAAA"
     polyA_site      3335
                     /gene="SDC1"
                     /gene_synonym="CD138; SDC; SYND1; syndecan"
                     /note="major polyA site"
ORIGIN      
        1 agagggcgct gcacactcgc gcccgaggac tgcctgcccc ccttcagccc ctctcccggg
       61 ctgcgcctcc gcactccggg cccgggcaga agggggtgcg cctcggcccc accacccagg
      121 gagcagccga gctgaaaggc cgggaaccgc ggcttgcggg gaccacagct cccgaaagcg
      181 acgttcggcc accggaggag cgggagccaa gcaggcggag ctcggcggga gaggtgcggg
      241 ccgaatccga gccgagcgga gaggaatccg gcagtagaga gcggactcca gccggcggac
      301 cctgcagccc tcgcctggga cagcggcgcg ctgggcaggc gcccaagaga gcatcgagca
      361 gcggaacccg cgaagccggc ccgcagccgc gacccgcgca gcctgccgct ctcccgccgc
      421 cggtccgggc agcatgaggc gcgcggcgct ctggctctgg ctgtgcgcgc tggcgctgag
      481 cctgcagccg gccctgccgc aaattgtggc tactaatttg ccccctgaag atcaagatgg
      541 ctctggggat gactctgaca acttctccgg ctcaggtgca ggtgctttgc aagatatcac
      601 cttgtcacag cagaccccct ccacttggaa ggacacgcag ctcctgacgg ctattcccac
      661 gtctccagaa cccaccggcc tggaggctac agctgcctcc acctccaccc tgccggctgg
      721 agaggggccc aaggagggag aggctgtagt cctgccagaa gtggagcctg gcctcaccgc
      781 ccgggagcag gaggccaccc cccgacccag ggagaccaca cagctcccga ccactcatct
      841 ggcctcaacg accacagcca ccacggccca ggagcccgcc acctcccacc cccacaggga
      901 catgcagcct ggccaccatg agacctcaac ccctgcagga cccagccaag ctgaccttca
      961 cactccccac acagaggatg gaggtccttc tgccaccgag agggctgctg aggatggagc
     1021 ctccagtcag ctcccagcag cagagggctc tggggagcag gacttcacct ttgaaacctc
     1081 gggggagaat acggctgtag tggccgtgga gcctgaccgc cggaaccagt ccccagtgga
     1141 tcagggggcc acgggggcct cacagggcct cctggacagg aaagaggtgc tgggaggggt
     1201 cattgccgga ggcctcgtgg ggctcatctt tgctgtgtgc ctggtgggtt tcatgctgta
     1261 ccgcatgaag aagaaggacg aaggcagcta ctccttggag gagccgaaac aagccaacgg
     1321 cggggcctac cagaagccca ccaaacagga ggaattctat gcctgacgcg ggagccatgc
     1381 gccccctccg ccctgccact cactaggccc ccacttgcct cttccttgaa gaactgcagg
     1441 ccctggcctc ccctgccacc aggccacctc cccagcattc cagcccctct ggtcgctcct
     1501 gcccacggag tcgtggggtg tgctgggagc tccactctgc ttctctgact tctgcctgga
     1561 gacttagggc accaggggtt tctcgcatag gacctttcca ccacagccag cacctggcat
     1621 cgcaccattc tgactcggtt tctccaaact gaagcagcct ctccccaggt ccagctctgg
     1681 aggggagggg gatccgactg ctttggacct aaatggcctc atgtggctgg aagatcctgc
     1741 gggtggggct tggggctcac acacctgtag cacttactgg taggaccaag catcttgggg
     1801 gggtggccgc tgagtggcag gggacaggag tccactttgt ttcgtgggga ggtctaatct
     1861 agatatcgac ttgtttttgc acatgtttcc tctagttctt tgttcatagc ccagtagacc
     1921 ttgttacttc tgaggtaagt taagtaagtt gattcggtat ccccccatct tgcttcccta
     1981 atctatggtc gggagacagc atcagggtta agaagacttt tttttttttt ttttaaacta
     2041 ggagaaccaa atctggaagc caaaatgtag gcttagtttg tgtgttgtct cttgagtttg
     2101 tcgctcatgt gtgcaacagg gtatggacta tctgtctggt ggccccgttt ctggtggtct
     2161 gttggcaggc tggccagtcc aggctgccgt ggggccgccg cctctttcaa gcagtcgtgc
     2221 ctgtgtccat gcgctcaggg ccatgctgag gcctgggccg ctgccacgtt ggagaagccc
     2281 gtgtgagaag tgaatgctgg gactcagcct tcagacagag aggactgtag ggagggcggc
     2341 aggggcctgg agatcctcct gcagaccacg cccgtcctgc ctgtggcgcc gtctccaggg
     2401 gctgcttcct cctggaaatt gacgaggggt gtcttgggca gagctggctc tgagcgcctc
     2461 catccaaggc caggttctcc gttagctcct gtggccccac cctgggccct gggctggaat
     2521 caggaatatt ttccaaagag tgatagtctt ttgcttttgg caaaactcta cttaatccaa
     2581 tgggtttttc cctgtacagt agattttcca aatgtaataa actttaatat aaagtagtcc
     2641 tgtgaatgcc actgccttcg cttcttgcct ctgtgctgtg tgtgacgtga ccggactttt
     2701 ctgcaaacac caacatgttg ggaaacttgg ctcgaatctc tgtgccttcg tctttcccat
     2761 ggggagggat tctggttcca gggtccctct gtgtatttgc ttttttgttt tggctgaaat
     2821 tctcctggag gtcggtaggt tcagccaagg ttttataagg ctgatgtcaa tttctgtgtt
     2881 gccaagctcc aagccccatc ttctaaatgg caaaggaagg tggatggccc cagcacagct
     2941 tgacctgagg ctgtggtcac agcggaggtg tggagccgag gcctaccccg cagacacctt
     3001 ggacatcctc ctcccacccg gctgcagagg ccagaggccc ccagcccagg gctcctgcac
     3061 ttacttgctt atttgacaac gtttcagcga ctccgttggc cactccgaga ggtgggccag
     3121 tctgtggatc agagatgcac caccaagcca agggaacctg tgtccggtat tcgatactgc
     3181 gactttctgc ctggagtgta tgactgcaca tgactcgggg gtggggaaag gggtcggctg
     3241 accatgctca tctgctggtc cgtgggacgg tgcccaagcc agaggctggg ttcatttgtg
     3301 taacgacaat aaacggtact tgtcatttcg ggcaa
//
