LOCUS       NM_053893               4841 bp    mRNA    linear   ROD 10-FEB-2025
DEFINITION  Rattus norvegicus syndecan 3 (Sdc3), mRNA.
ACCESSION   NM_053893
VERSION     NM_053893.3
KEYWORDS    RefSeq; RefSeq Select.
SOURCE      Rattus norvegicus (Norway rat)
  ORGANISM  Rattus norvegicus
            Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
            Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha;
            Muroidea; Muridae; Murinae; Rattus.
REFERENCE   1  (bases 1 to 4841)
  AUTHORS   Liu,C.H., Kuo,Y.C., Wang,C.Y., Hsu,C.C., Ho,Y.J., Chiang,Y.C.,
            Mai,F.D., Lin,W.J. and Liao,W.C.
  TITLE     Syndecan-3 contributes to the regulation of the microenvironment at
            the node of Ranvier following end-to-side neurorrhaphy: sodium
            image analysis
  JOURNAL   Histochem Cell Biol 155 (3), 355-367 (2021)
   PUBMED   33170350
  REMARK    GeneRIF: Syndecan-3 contributes to the regulation of the
            microenvironment at the node of Ranvier following end-toside
            neurorrhaphy: sodium image analysis.
REFERENCE   2  (bases 1 to 4841)
  AUTHORS   Barallobre-Barreiro,J., Oklu,R., Lynch,M., Fava,M., Baig,F.,
            Yin,X., Barwari,T., Potier,D.N., Albadawi,H., Jahangiri,M.,
            Porter,K.E., Watkins,M.T., Misra,S., Stoughton,J. and Mayr,M.
  TITLE     Extracellular matrix remodelling in response to venous
            hypertension: proteomics of human varicose veins
  JOURNAL   Cardiovasc Res 110 (3), 419-430 (2016)
   PUBMED   27068509
REFERENCE   3  (bases 1 to 4841)
  AUTHORS   Kwon,M.J., Park,J., Jang,S., Eom,C.Y. and Oh,E.S.
  TITLE     The Conserved Phenylalanine in the Transmembrane Domain Enhances
            Heteromeric Interactions of Syndecans
  JOURNAL   J Biol Chem 291 (2), 872-881 (2016)
   PUBMED   26601939
REFERENCE   4  (bases 1 to 4841)
  AUTHORS   Landgraf,P., Mikhaylova,M., Macharadze,T., Borutzki,C.,
            Zenclussen,A.C., Wahle,P. and Kreutz,M.R.
  TITLE     Binding of Y-P30 to syndecan 2/3 regulates the nuclear localization
            of CASK
  JOURNAL   PLoS One 9 (2), e85924 (2014)
   PUBMED   24498267
  REMARK    GeneRIF: Data suggest that Y-P30 can control the nuclear
            localization of Calcium/calmodulin-dependent serine kinase (CASK)
            in a syndecan (SDC) -2 and -3 -dependent manner.
            Publication Status: Online-Only
REFERENCE   5  (bases 1 to 4841)
  AUTHORS   De Rossi,G. and Whiteford,J.R.
  TITLE     A novel role for syndecan-3 in angiogenesis
  JOURNAL   F1000Res 2, 270 (2013)
   PUBMED   24555114
  REMARK    Publication Status: Online-Only
REFERENCE   6  (bases 1 to 4841)
  AUTHORS   Imai,S., Kaksonen,M., Raulo,E., Kinnunen,T., Fages,C., Meng,X.,
            Lakso,M. and Rauvala,H.
  TITLE     Osteoblast recruitment and bone formation enhanced by cell
            matrix-associated heparin-binding growth-associated molecule
            (HB-GAM)
  JOURNAL   J Cell Biol 143 (4), 1113-1128 (1998)
   PUBMED   9817766
REFERENCE   7  (bases 1 to 4841)
  AUTHORS   Nakanishi,T., Kadomatsu,K., Okamoto,T., Ichihara-Tanaka,K.,
            Kojima,T., Saito,H., Tomoda,Y. and Muramatsu,T.
  TITLE     Expression of syndecan-1 and -3 during embryogenesis of the central
            nervous system in relation to binding with midkine
  JOURNAL   J Biochem 121 (2), 197-205 (1997)
   PUBMED   9089390
REFERENCE   8  (bases 1 to 4841)
  AUTHORS   Carey,D.J., Conner,K., Asundi,V.K., O'Mahony,D.J., Stahl,R.C.,
            Showalter,L., Cizmeci-Smith,G., Hartman,J. and Rothblum,L.I.
  TITLE     cDNA cloning, genomic organization, and in vivo expression of rat
            N-syndecan
  JOURNAL   J Biol Chem 272 (5), 2873-2879 (1997)
   PUBMED   9006931
REFERENCE   9  (bases 1 to 4841)
  AUTHORS   Raulo,E., Chernousov,M.A., Carey,D.J., Nolo,R. and Rauvala,H.
  TITLE     Isolation of a neuronal cell surface receptor of heparin binding
            growth-associated molecule (HB-GAM). Identification as N-syndecan
            (syndecan-3)
  JOURNAL   J Biol Chem 269 (17), 12999-13004 (1994)
   PUBMED   8175719
REFERENCE   10 (bases 1 to 4841)
  AUTHORS   Carey,D.J., Evans,D.M., Stahl,R.C., Asundi,V.K., Conner,K.J.,
            Garbes,P. and Cizmeci-Smith,G.
  TITLE     Molecular cloning and characterization of N-syndecan, a novel
            transmembrane heparan sulfate proteoglycan
  JOURNAL   J Cell Biol 117 (1), 191-201 (1992)
   PUBMED   1556152
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            U73184.1, U52825.1 and JAXUCZ010000005.1.
            
            On Oct 11, 2007 this sequence version replaced NM_053893.2.
            
            Sequence Note: This RefSeq record was created from transcript and
            genomic sequence data because no single transcript was available
            for the full length of the gene. The extent of this transcript is
            supported by transcript alignments.
            
            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 :: U52825.1, SRR26643297.20306.1
                                           [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA5760386, SAMEA5760389
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            RefSeq Select criteria :: based on single protein-coding transcript
            ##RefSeq-Attributes-END##
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-495               U73184.1           69-563
            496-571             U52825.1           499-574
            572-757             U73184.1           640-825
            758-4230            JAXUCZ010000005.1  148279052-148282524
            4231-4840           U73184.1           827-1436
            4841-8313           JAXUCZ010000005.1  148279052-148282524
FEATURES             Location/Qualifiers
     source          1..4841
                     /organism="Rattus norvegicus"
                     /mol_type="mRNA"
                     /strain="Sprague-Dawley"
                     /db_xref="taxon:10116"
                     /chromosome="5"
                     /map="5q36"
     gene            1..4841
                     /gene="Sdc3"
                     /note="syndecan 3"
                     /db_xref="GeneID:116673"
                     /db_xref="RGD:621486"
     exon            1..178
                     /gene="Sdc3"
                     /inference="alignment:Splign:2.1.0"
     CDS             47..1375
                     /gene="Sdc3"
                     /note="SYND3; N-syndecan; neuroglycan"
                     /codon_start=1
                     /product="syndecan-3 precursor"
                     /protein_id="NP_446345.3"
                     /db_xref="GeneID:116673"
                     /db_xref="RGD:621486"
                     /translation="MKPGPPRRGTAQGQRVDTATHGPGARGLLLPPLLLLLLAGRAAG
                     AQRWRNENFERPVDLEGSGDDDSFPDDELDDLYSGSGSGYFEQESGLETAMRFIPDIA
                     LAAPTAPAMLPTTVIQPVDTPFEELLSEHPGPEPVTSPPLVTEVTEVVEEPSQRATTI
                     STTTSTTAATTTGAPTMATAPATAATTAPSTPAAPPATATTADIRTTGIQGLLPLPLT
                     TAATAKATTPAVPSPPTTVATLDTEAPTPRLVNTATSRPRALPRPVTTQEPEVAERST
                     LPLGTTAPGPTEVAQTPTPESLLTTTQDEPEVPVSGGPSGDFELQEETTQPDTANEVV
                     AVEGAAAKPSPPLGTLPKGARPGLGLHDNAIDSGSSAAQLPQKSILERKEVLVAVIVG
                     GVVGALFAAFLVTLLIYRMKKKDEGSYTLEEPKQASVTYQKPDKQEEFYA"
     exon            179..296
                     /gene="Sdc3"
                     /inference="alignment:Splign:2.1.0"
     exon            297..919
                     /gene="Sdc3"
                     /inference="alignment:Splign:2.1.0"
     exon            920..1208
                     /gene="Sdc3"
                     /inference="alignment:Splign:2.1.0"
     exon            1209..4841
                     /gene="Sdc3"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      
        1 gccgagcgca ggtcccgcgc agcccgcgcc gcgaacaaag gccgccatga agcccgggcc
       61 gccgcgccgc gggaccgcac aggggcagcg cgtggacacc gccacccatg ggcccggggc
      121 ccgcgggttg ttactgccac cgctgctgct gctgttgctg gccggccgcg ccgcgggggc
      181 tcaacgctgg cgcaatgaga acttcgagag gccggtggat cttgagggct caggggacga
      241 cgactcattt cctgatgatg aactggatga cctctactcg gggtcgggct ctggctactt
      301 cgagcaggag tccggccttg agacagccat gcggttcatt cctgacatag ccctggctgc
      361 acccaccgca cctgccatgc tacccacgac cgttatccag cccgtggata ccccgtttga
      421 ggaactcctt tctgagcatc ccggccccga accagtcacc agtcccccac tggtgacaga
      481 ggtgacagaa gttgtagaag agcccagtca gagagccacc actatctcca ccaccacatc
      541 taccactgca gccaccacca caggggcccc aactatggcc acagcacctg ctacagcagc
      601 caccactgcc cctagcactc ccgcggcacc ccctgccacg gccaccacgg ctgacataag
      661 gaccaccggc atacaagggc tgctgcctct tcccctgacc acggctgcca cagccaaggc
      721 cactacccca gcagtaccct caccacccac tactgtggct accttggaca cagaggcccc
      781 gacacctagg ctggtcaaca cagctacctc tcggccacga gcccttcctc ggccagtcac
      841 cacccaggag cctgaagttg ctgagaggag taccctgccg ttggggacca ccgctcctgg
      901 acccacagag gtggctcaga ccccaactcc agagtccctt ctgaccacga cccaggatga
      961 gccagaggtg ccagtaagcg gggggcccag cggggacttt gagctgcaag aagagaccac
     1021 acagccagac acagccaatg aagtggtggc ggtggaagga gccgcggcca agccatcacc
     1081 tccactgggg acactaccca agggtgcccg cccaggcctt ggcctccacg acaatgccat
     1141 cgactcgggc agctctgctg cccagctccc tcagaagagc atactagagc ggaaggaggt
     1201 gctcgtagct gtgatcgtag gtggcgtggt gggcgccctc ttcgctgcct tcctggtcac
     1261 gttgctcatc taccgcatga agaagaagga cgaaggcagc tacaccttgg aagagcccaa
     1321 gcaggcaagc gtcacatacc agaagcccga caagcaggag gagttctatg cttagcagag
     1381 agagccacag tgcctcctgc agcctcgact ccgccttgcc cagtccctgt cccaacaaca
     1441 gcccaggccc aatcctgggc ctgggcctgg gcctgggatg gagcctggcc ctgcttcctt
     1501 ctgctcaggc tgctagctta acacagactg tcctaaggag cagaggcgcc accatctgcc
     1561 ccagactgtg cccgtatgac cccttctcta ggcccattcc ctccagcctg gggcttcagg
     1621 atcttgagtc ccatggacaa gaggaaggaa gccctggttg ctggttgaaa catgggcggg
     1681 gccagggtta agatggccca cagtgctctt cacgcagagg ccaccatgct ggcttctaaa
     1741 accaacacat ggtacatcta gccctccaat tcaacatcat ccggatgctg aggcctcgag
     1801 ctgctgtccc aaggcctctc tcgacaggag ggtgtccttt gtcaccagcc tgagtcgtcg
     1861 tggagtcacc gccccctctc ccctgcctaa tgcacatgtc cccaggctgc acctctttct
     1921 gcacctcctc ccagggaaag ggcttcctca gtgcacaggg cagtcagtgg taagggaggc
     1981 cactctagcg tccctcctga gaggggatgt cacatcgcct ttgtcaacca ctgctataat
     2041 cctataatgc attcacacag gagacaaaaa catacccagt cctgaccacc cggccagcga
     2101 gacatcacac acacgcacca ccttcacgca gtgctcagac atcctgacgc ttctgccacg
     2161 taggccactg tcatcgtcac cagtggcaac cacgccacct tcctcccact ctctctttac
     2221 acacattggt cctgcatctg gctcctctaa ccatccaggt cactgaggaa ggcaggaccg
     2281 agttgtaggc atcagcccat attgggtccc ccagagtcac cctattccac ttggtcccca
     2341 ccatgacacc tataccagcc acactgatgc tgatcccagc tgatgtcagt cacaacccca
     2401 cacagatgca ggctcgccct ccccactgtg gctcatagag aagttttggg ctagcctctg
     2461 ccagccaagt ctgaaggaag aagggagcta gggtctccca ggaccaagga gctgtgtggg
     2521 ttgtccctgg tctctatgta tttcctttct gctctgagcc aggagctgtc tctgcctccc
     2581 aggacacgtg tctccaaagt gcctgcgagg gcgggctccg cccaggccct ctgtgtcccc
     2641 tgccctgccc tggcctggtg agaccgacct caggcctacc tactctgggt cctctctgtg
     2701 gacacaactg accaggcaac ttggcagttc tggctacaac tggatggacc catactccag
     2761 caggctcatc ccaatgctgt aggccccaag agtcattgat ggggacaagg gtgtcacagg
     2821 cctcaagtct accaccctgt ctctgttatt cttagaagtg gggctattcc agaggtattt
     2881 taagtgtggg atcaccattc tctttgtgag aggggtgtgc cgagggaatt ctcagcacca
     2941 aagggacgcg gcttaggtag tgattagcgg gtacccctct gccatctctc aatgtcccag
     3001 actcagtcag gtgaccacat ggtttctgtt tcattttaaa gattccctga cagcagagtt
     3061 gggcagaatg aagaaccaca tctgggcaat ggggacagga tctaggcaca gcttgtcttt
     3121 ctggggtggg gggtgtcccc tgtcaggctc tgtctgtctt ccagaccccc aggcttcttt
     3181 caatggggct ttagagtttt gttaaggaag ccagttggcc aggactttaa ggaggggaag
     3241 aaatgagagg tgtcctagtc ccatgaggta tggaggaggg agcttggccg agatcttccc
     3301 tgcagcagga gggctgggta gggagtagag gagagcagtg tcccagacct ttccactcct
     3361 ccctggtaag ctgcagtctt gggaactaga gctttggaga gaaaggctca ggaggtgggg
     3421 gatgcagcct ccaggggctc atccctaggg gacaccggga tcagagcagg aggccccagc
     3481 ttcttctgtg ttgggctaga gctcacttct cagtgttcag ggtggctcca accctggggc
     3541 tgtgggtttg gcctctggga ccagcactct ttctgcgtca acatttgaaa gaagatactg
     3601 taggtcttga gtatggggtc caggccccaa ggccaatgtc ttaggtttta tgcccatgac
     3661 gtgtgaccta aaggttaatg gtgtgagcag cccagataca ctgggctagc ctggtgaggc
     3721 caggacgatt taagagaact cagttccaag ggtgaactga actcttccta gtgcaatgtg
     3781 ggtgcggggt tcccaccctg ccccagaaat agtgcagtac atgcggggcc tgcccaaagg
     3841 aatccggaga cacctcagtg ctcctgggta ggtattcagg acgccggcat gcctggaagc
     3901 atggtgcatt ctgaatcaaa ggagttggtg tgtcctggac ctctccacgc cctggtttcc
     3961 tagggagtaa gacatgctgg ggccagagag ctgaagaact aggcttcgtc tctcttgggg
     4021 gccagactag ggactctctg tgggcaaggt tgattccctt tgactgccag aggcaagtgg
     4081 gtgacagcca ggactggctg agccgacctg cagcaagagc ctaggatgct ggggccagac
     4141 ctccctgggc ttggcctcca ggctggggct cgagccacac agagaagagc caatgctgct
     4201 ttcggggcag gggtggctgc ctggtctgcc ctggctttct cctgggatgg acctccccag
     4261 acttggtgtc tgtaaataga agcccacact gtacagatct acagagaggc ccaaactggg
     4321 ccctggagtc accattctga ggggctgatg gcctggcttc ccccaggggc cctctgggtg
     4381 cttgggtatg cctggccccg gcgtggtgaa tgcatgtaaa tacttttcgt agacagtgtg
     4441 gctccagaga gccccctgag acagtgtccc cctccccacc tctactggtt catcctctct
     4501 cctgtacaga gccctcccgg cctctgggcc accaggaaca ggggcttcct cctttcccta
     4561 ggcttcccta cccgtccttt ccctataacc catttattaa ccaaccctgt cctgagttca
     4621 tggccaaaac gtacataaga aaaggaggaa gggtcagatg gataaagata aagataccaa
     4681 ggcctggtcc atcctagcat gggcgctcgt ccacccctga cttgggaagg acagggcttg
     4741 ctttgttttg ttttctgttt gtttcgtttt tgtttttttt tttaacattt ccctgtgctg
     4801 tgcccattta taagagggaa taaaattaag ctgaaagatg c
//
