LOCUS       NM_002997               3165 bp    mRNA    linear   PRI 01-OCT-2024
DEFINITION  Homo sapiens syndecan 1 (SDC1), transcript variant 2, mRNA.
ACCESSION   NM_002997
VERSION     NM_002997.5
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 3165)
  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 3165)
  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 3165)
  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 3165)
  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 3165)
  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 3165)
  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 3165)
  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 3165)
  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 3165)
  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 3165)
  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.
            This sequence is a reference standard in the RefSeqGene project.
            
            On Nov 23, 2018 this sequence version replaced NM_002997.4.
            
            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 (2) differs in the 5' UTR compared
            to variant 1.  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 :: AJ551176.1, BC008765.2 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA2142348, SAMEA2144333
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000254351.9/ ENSP00000254351.4
            RefSeq Select criteria :: based on conservation, expression
            ##RefSeq-Attributes-END##
            COMPLETENESS: full length.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-329               AC104792.5         39585-39913         c
            330-411             AC104792.5         20126-20207         c
            412-890             AC104792.5         18596-19074         c
            891-1026            AC104792.5         17870-18005         c
            1027-3165           AC104792.5         15580-17718         c
FEATURES             Location/Qualifiers
     source          1..3165
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="2"
                     /map="2p24.1"
     gene            1..3165
                     /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..329
                     /gene="SDC1"
                     /gene_synonym="CD138; SDC; SYND1; syndecan"
                     /inference="alignment:Splign:2.1.0"
     CDS             264..1196
                     /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_002988.4"
                     /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            330..411
                     /gene="SDC1"
                     /gene_synonym="CD138; SDC; SYND1; syndecan"
                     /inference="alignment:Splign:2.1.0"
     exon            412..890
                     /gene="SDC1"
                     /gene_synonym="CD138; SDC; SYND1; syndecan"
                     /inference="alignment:Splign:2.1.0"
     exon            891..1026
                     /gene="SDC1"
                     /gene_synonym="CD138; SDC; SYND1; syndecan"
                     /inference="alignment:Splign:2.1.0"
     exon            1027..3165
                     /gene="SDC1"
                     /gene_synonym="CD138; SDC; SYND1; syndecan"
                     /inference="alignment:Splign:2.1.0"
     regulatory      2458..2463
                     /regulatory_class="polyA_signal_sequence"
                     /gene="SDC1"
                     /gene_synonym="CD138; SDC; SYND1; syndecan"
                     /note="hexamer: TATAAA"
     polyA_site      2481
                     /gene="SDC1"
                     /gene_synonym="CD138; SDC; SYND1; syndecan"
     regulatory      3138..3143
                     /regulatory_class="polyA_signal_sequence"
                     /gene="SDC1"
                     /gene_synonym="CD138; SDC; SYND1; syndecan"
                     /note="hexamer: AATAAA"
     polyA_site      3165
                     /gene="SDC1"
                     /gene_synonym="CD138; SDC; SYND1; syndecan"
                     /note="major polyA site"
ORIGIN      
        1 agtttttgca acggctaagg aagggcctgt gggtttatta taaggcggag ctcggcggga
       61 gaggtgcggg ccgaatccga gccgagcgga gaggaatccg gcagtagaga gcggactcca
      121 gccggcggac cctgcagccc tcgcctggga cagcggcgcg ctgggcaggc gcccaagaga
      181 gcatcgagca gcggaacccg cgaagccggc ccgcagccgc gacccgcgca gcctgccgct
      241 ctcccgccgc cggtccgggc agcatgaggc gcgcggcgct ctggctctgg ctgtgcgcgc
      301 tggcgctgag cctgcagccg gccctgccgc aaattgtggc tactaatttg ccccctgaag
      361 atcaagatgg ctctggggat gactctgaca acttctccgg ctcaggtgca ggtgctttgc
      421 aagatatcac cttgtcacag cagaccccct ccacttggaa ggacacgcag ctcctgacgg
      481 ctattcccac gtctccagaa cccaccggcc tggaggctac agctgcctcc acctccaccc
      541 tgccggctgg agaggggccc aaggagggag aggctgtagt cctgccagaa gtggagcctg
      601 gcctcaccgc ccgggagcag gaggccaccc cccgacccag ggagaccaca cagctcccga
      661 ccactcatct ggcctcaacg accacagcca ccacggccca ggagcccgcc acctcccacc
      721 cccacaggga catgcagcct ggccaccatg agacctcaac ccctgcagga cccagccaag
      781 ctgaccttca cactccccac acagaggatg gaggtccttc tgccaccgag agggctgctg
      841 aggatggagc ctccagtcag ctcccagcag cagagggctc tggggagcag gacttcacct
      901 ttgaaacctc gggggagaat acggctgtag tggccgtgga gcctgaccgc cggaaccagt
      961 ccccagtgga tcagggggcc acgggggcct cacagggcct cctggacagg aaagaggtgc
     1021 tgggaggggt cattgccgga ggcctcgtgg ggctcatctt tgctgtgtgc ctggtgggtt
     1081 tcatgctgta ccgcatgaag aagaaggacg aaggcagcta ctccttggag gagccgaaac
     1141 aagccaacgg cggggcctac cagaagccca ccaaacagga ggaattctat gcctgacgcg
     1201 ggagccatgc gccccctccg ccctgccact cactaggccc ccacttgcct cttccttgaa
     1261 gaactgcagg ccctggcctc ccctgccacc aggccacctc cccagcattc cagcccctct
     1321 ggtcgctcct gcccacggag tcgtggggtg tgctgggagc tccactctgc ttctctgact
     1381 tctgcctgga gacttagggc accaggggtt tctcgcatag gacctttcca ccacagccag
     1441 cacctggcat cgcaccattc tgactcggtt tctccaaact gaagcagcct ctccccaggt
     1501 ccagctctgg aggggagggg gatccgactg ctttggacct aaatggcctc atgtggctgg
     1561 aagatcctgc gggtggggct tggggctcac acacctgtag cacttactgg taggaccaag
     1621 catcttgggg gggtggccgc tgagtggcag gggacaggag tccactttgt ttcgtgggga
     1681 ggtctaatct agatatcgac ttgtttttgc acatgtttcc tctagttctt tgttcatagc
     1741 ccagtagacc ttgttacttc tgaggtaagt taagtaagtt gattcggtat ccccccatct
     1801 tgcttcccta atctatggtc gggagacagc atcagggtta agaagacttt tttttttttt
     1861 ttttaaacta ggagaaccaa atctggaagc caaaatgtag gcttagtttg tgtgttgtct
     1921 cttgagtttg tcgctcatgt gtgcaacagg gtatggacta tctgtctggt ggccccgttt
     1981 ctggtggtct gttggcaggc tggccagtcc aggctgccgt ggggccgccg cctctttcaa
     2041 gcagtcgtgc ctgtgtccat gcgctcaggg ccatgctgag gcctgggccg ctgccacgtt
     2101 ggagaagccc gtgtgagaag tgaatgctgg gactcagcct tcagacagag aggactgtag
     2161 ggagggcggc aggggcctgg agatcctcct gcagaccacg cccgtcctgc ctgtggcgcc
     2221 gtctccaggg gctgcttcct cctggaaatt gacgaggggt gtcttgggca gagctggctc
     2281 tgagcgcctc catccaaggc caggttctcc gttagctcct gtggccccac cctgggccct
     2341 gggctggaat caggaatatt ttccaaagag tgatagtctt ttgcttttgg caaaactcta
     2401 cttaatccaa tgggtttttc cctgtacagt agattttcca aatgtaataa actttaatat
     2461 aaagtagtcc tgtgaatgcc actgccttcg cttcttgcct ctgtgctgtg tgtgacgtga
     2521 ccggactttt ctgcaaacac caacatgttg ggaaacttgg ctcgaatctc tgtgccttcg
     2581 tctttcccat ggggagggat tctggttcca gggtccctct gtgtatttgc ttttttgttt
     2641 tggctgaaat tctcctggag gtcggtaggt tcagccaagg ttttataagg ctgatgtcaa
     2701 tttctgtgtt gccaagctcc aagccccatc ttctaaatgg caaaggaagg tggatggccc
     2761 cagcacagct tgacctgagg ctgtggtcac agcggaggtg tggagccgag gcctaccccg
     2821 cagacacctt ggacatcctc ctcccacccg gctgcagagg ccagaggccc ccagcccagg
     2881 gctcctgcac ttacttgctt atttgacaac gtttcagcga ctccgttggc cactccgaga
     2941 ggtgggccag tctgtggatc agagatgcac caccaagcca agggaacctg tgtccggtat
     3001 tcgatactgc gactttctgc ctggagtgta tgactgcaca tgactcgggg gtggggaaag
     3061 gggtcggctg accatgctca tctgctggtc cgtgggacgg tgcccaagcc agaggctggg
     3121 ttcatttgtg taacgacaat aaacggtact tgtcatttcg ggcaa
//
