LOCUS       NM_011521               2460 bp    mRNA    linear   ROD 10-FEB-2025
DEFINITION  Mus musculus syndecan 4 (Sdc4), mRNA.
ACCESSION   NM_011521
VERSION     NM_011521.2
KEYWORDS    RefSeq; RefSeq Select.
SOURCE      Mus musculus (house mouse)
  ORGANISM  Mus musculus
            Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
            Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha;
            Muroidea; Muridae; Murinae; Mus; Mus.
REFERENCE   1  (bases 1 to 2460)
  AUTHORS   Sao,K. and Risbud,M.V.
  TITLE     Sdc4 deletion perturbs intervertebral disc matrix homeostasis and
            promotes early osteopenia in the aging mouse spine
  JOURNAL   Matrix Biol 131, 46-61 (2024)
   PUBMED   38806135
  REMARK    GeneRIF: Sdc4 deletion perturbs intervertebral disc matrix
            homeostasis and promotes early osteopenia in the aging mouse spine.
REFERENCE   2  (bases 1 to 2460)
  AUTHORS   Adams,D.J., Barlas,B., McIntyre,R.E., Salguero,I., van der
            Weyden,L., Barros,A., Vicente,J.R., Karimpour,N., Haider,A.,
            Ranzani,M., Turner,G., Thompson,N.A., Harle,V., Olvera-Leon,R.,
            Robles-Espinoza,C.D., Speak,A.O., Geisler,N., Weninger,W.J.,
            Geyer,S.H., Hewinson,J., Karp,N.A., Fu,B., Yang,F., Kozik,Z.,
            Choudhary,J., Yu,L., van Ruiten,M.S., Rowland,B.D., Lelliott,C.J.,
            Del Castillo Velasco-Herrera,M., Verstraten,R., Bruckner,L.,
            Henssen,A.G., Rooimans,M.A., de Lange,J., Mohun,T.J., Arends,M.J.,
            Kentistou,K.A., Coelho,P.A., Zhao,Y., Zecchini,H., Perry,J.R.B.,
            Jackson,S.P. and Balmus,G.
  CONSRTM   Sanger Mouse Genetics Project
  TITLE     Genetic determinants of micronucleus formation in vivo
  JOURNAL   Nature 627 (8002), 130-136 (2024)
   PUBMED   38355793
REFERENCE   3  (bases 1 to 2460)
  AUTHORS   Maldonado,H., Savage,B.D., Barker,H.R., May,U., Vahatupa,M.,
            Badiani,R.K., Wolanska,K.I., Turner,C.M.J., Pemmari,T.,
            Ketomaki,T., Prince,S., Humphries,M.J., Ruoslahti,E., Morgan,M.R.
            and Jarvinen,T.A.H.
  TITLE     Systemically administered wound-homing peptide accelerates wound
            healing by modulating syndecan-4 function
  JOURNAL   Nat Commun 14 (1), 8069 (2023)
   PUBMED   38057316
  REMARK    Erratum:[Nat Commun. 2024 Jan 3;15(1):234. doi:
            10.1038/s41467-023-44574-4.. PMID: 38172142]
            Publication Status: Online-Only
REFERENCE   4  (bases 1 to 2460)
  AUTHORS   Wishart,T.F.L. and Lovicu,F.J.
  TITLE     Spatiotemporal Localisation of Heparan Sulphate Proteoglycans
            throughout Mouse Lens Morphogenesis
  JOURNAL   Cells 12 (10), 1364 (2023)
   PUBMED   37408198
  REMARK    Publication Status: Online-Only
REFERENCE   5  (bases 1 to 2460)
  AUTHORS   Sztretye,M., Singlar,Z., Ganbat,N., Al-Gaadi,D., Szabo,K.,
            Kohler,Z.M., Dux,L., Keller-Pinter,A., Csernoch,L. and Szentesi,P.
  TITLE     Unravelling the Effects of Syndecan-4 Knockdown on Skeletal Muscle
            Functions
  JOURNAL   Int J Mol Sci 24 (8), 6933 (2023)
   PUBMED   37108098
  REMARK    GeneRIF: Unravelling the Effects of Syndecan-4 Knockdown on
            Skeletal Muscle Functions.
            Publication Status: Online-Only
REFERENCE   6  (bases 1 to 2460)
  AUTHORS   Zha,H., Remmers,E.F., Du,Y., Goldmuntz,E.A., Mathern,P., Zhang,H.,
            Cash,J.M., Crofford,L.J. and Wilder,R.L.
  TITLE     A single linkage group comprising 11 polymorphic DNA markers on rat
            chromosome 3
  JOURNAL   Mamm Genome 5 (9), 538-541 (1994)
   PUBMED   8000136
REFERENCE   7  (bases 1 to 2460)
  AUTHORS   Kim,C.W., Goldberger,O.A., Gallo,R.L. and Bernfield,M.
  TITLE     Members of the syndecan family of heparan sulfate proteoglycans are
            expressed in distinct cell-, tissue-, and development-specific
            patterns
  JOURNAL   Mol Biol Cell 5 (7), 797-805 (1994)
   PUBMED   7812048
REFERENCE   8  (bases 1 to 2460)
  AUTHORS   Spring,J., Goldberger,O.A., Jenkins,N.A., Gilbert,D.J.,
            Copeland,N.G. and Bernfield,M.
  TITLE     Mapping of the syndecan genes in the mouse: linkage with members of
            the myc gene family
  JOURNAL   Genomics 21 (3), 597-601 (1994)
   PUBMED   7959737
REFERENCE   9  (bases 1 to 2460)
  AUTHORS   Kojima,T., Shworak,N.W. and Rosenberg,R.D.
  TITLE     Molecular cloning and expression of two distinct cDNA-encoding
            heparan sulfate proteoglycan core proteins from a rat endothelial
            cell line
  JOURNAL   J Biol Chem 267 (7), 4870-4877 (1992)
   PUBMED   1537865
REFERENCE   10 (bases 1 to 2460)
  AUTHORS   Sutherland,A.E., Sanderson,R.D., Mayes,M., Seibert,M.,
            Calarco,P.G., Bernfield,M. and Damsky,C.H.
  TITLE     Expression of syndecan, a putative low affinity fibroblast growth
            factor receptor, in the early mouse embryo
  JOURNAL   Development 113 (1), 339-351 (1991)
   PUBMED   1765004
COMMENT     PROVISIONAL REFSEQ: This record has not yet been subject to final
            NCBI review. The reference sequence was derived from AL590429.10.
            
            On Nov 17, 2006 this sequence version replaced NM_011521.1.
            
            Sequence Note: The RefSeq transcript and protein were derived from
            genomic sequence to make the sequence consistent with the reference
            genome assembly. The genomic coordinates used for the transcript
            record were based on 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 :: D89571.1, AK145805.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMN00849386, SAMN01164133
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            RefSeq Select criteria :: based on conservation, expression,
                                      longest protein
            ##RefSeq-Attributes-END##
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-99                AL590429.10        185066-185164       c
            100-226             AL590429.10        173163-173289       c
            227-273             AL590429.10        171656-171702       c
            274-469             AL590429.10        170869-171064       c
            470-2460            AL590429.10        166223-168213       c
FEATURES             Location/Qualifiers
     source          1..2460
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="2"
                     /map="2 85.16 cM"
     gene            1..2460
                     /gene="Sdc4"
                     /gene_synonym="ryudocan; S4; Synd4; syndecan-4"
                     /note="syndecan 4"
                     /db_xref="GeneID:20971"
                     /db_xref="MGI:MGI:1349164"
     exon            1..99
                     /gene="Sdc4"
                     /gene_synonym="ryudocan; S4; Synd4; syndecan-4"
                     /inference="alignment:Splign:2.1.0"
     CDS             25..621
                     /gene="Sdc4"
                     /gene_synonym="ryudocan; S4; Synd4; syndecan-4"
                     /note="ryudocan core protein"
                     /codon_start=1
                     /product="syndecan-4 precursor"
                     /protein_id="NP_035651.1"
                     /db_xref="CCDS:CCDS17036.1"
                     /db_xref="GeneID:20971"
                     /db_xref="MGI:MGI:1349164"
                     /translation="MAPACLLAPLLLLLLGGFPLVPGESIRETEVIDPQDLLEGRYFS
                     GALPDDEDAGGSDDFELSGSGDLDDTEEPRPFPEVIEPLVPLDNHIPENAQPGIRVPS
                     EPKELEENEVIPKRAPSDVGDDMSNKVSMSSTAQGSNIFERTEVLAALIVGGVVGILF
                     AVFLILLLVYRMKKKDEGSYDLGKKPIYKKAPTNEFYA"
     exon            100..226
                     /gene="Sdc4"
                     /gene_synonym="ryudocan; S4; Synd4; syndecan-4"
                     /inference="alignment:Splign:2.1.0"
     exon            227..273
                     /gene="Sdc4"
                     /gene_synonym="ryudocan; S4; Synd4; syndecan-4"
                     /inference="alignment:Splign:2.1.0"
     exon            274..469
                     /gene="Sdc4"
                     /gene_synonym="ryudocan; S4; Synd4; syndecan-4"
                     /inference="alignment:Splign:2.1.0"
     exon            470..2460
                     /gene="Sdc4"
                     /gene_synonym="ryudocan; S4; Synd4; syndecan-4"
                     /inference="alignment:Splign:2.1.0"
     regulatory      2432..2437
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Sdc4"
                     /gene_synonym="ryudocan; S4; Synd4; syndecan-4"
                     /note="hexamer: AATAAA"
     polyA_site      2452
                     /gene="Sdc4"
                     /gene_synonym="ryudocan; S4; Synd4; syndecan-4"
                     /note="major polyA site"
ORIGIN      
        1 ccactggttt gcgctgttga agccatggcg cctgcctgcc tgcttgcgcc gctgctgctg
       61 ctgctcctcg gaggcttccc cttggtcccc ggagagtcga ttcgagagac agaggtcatc
      121 gacccccagg acctcctgga aggcagatac ttctctggag ccctccccga cgacgaagat
      181 gctggcggct cggatgactt tgagctctcg ggttctggag atctggatga cacggaggag
      241 cccaggccct tccctgaagt gattgagccc ttggtgccac tggataacca catccctgag
      301 aatgcacagc ctggcatccg tgtcccctca gagcccaagg aactggaaga gaatgaggtc
      361 attcctaaaa gggccccctc cgacgtgggg gatgacatgt ccaacaaagt atccatgtcc
      421 agcactgccc agggcagcaa catctttgag agaactgagg tcttggcagc tctgatcgtg
      481 ggcggcgtgg taggcatcct ctttgccgtt ttcctgatcc tgctgctggt gtaccgcatg
      541 aagaagaagg acgaaggcag ttacgacttg ggcaagaaac ccatctacaa aaaagccccc
      601 accaatgagt tctacgcatg aagcttcctc ccgcgagcgc tgcttggact tattggggag
      661 aggagtggag ggttgtgggt ggcgggcgtt ggcagagagc agcaggcacc ttaatgctga
      721 cttgtcagta tctccatctc tagtcacctt tctggtgtca gaagagatgt gatcttctac
      781 tgtgctgcct gagagagaga gagagagaga gagggagaga gagagagaga gagagaggct
      841 gtgtctgtgt gtctgtgtct cagttgctct ggcagaaaaa tggggttaaa cttgcccttt
      901 ctgaaggcaa gcctagaatt gggtcttttg ttgtcattgt tccaaatttc cagaatagaa
      961 tataggacca gtttagatcc tgtagtaaac atgtcccatc tatgactgcc ttgattatag
     1021 aggcaagggg ttactgtgtg aatcccggct cccttccaca tgctgtacac cctatccatc
     1081 tgtcaggagc tggggcaagg agccagaacc ctctgcgcct tgagatgagt ctgccatgag
     1141 aacttgctca cgctgcagag tctctgtggc gtacctgggg gcattctaag tccagtgact
     1201 tttgaaattc aacctttttt taaaaaaaaa aaatctaggg agggcggggt gaagtgctga
     1261 aagctcacac tgaagtgtgt ttgtaggaga ttcataaaac taagttttta aatggttcat
     1321 tcctttatgg gagcgtctgc gcctgggctg agtgtggggg atacacagat gttctatcta
     1381 gaacatttcc attgcaacag ctaagtttgt gtttcgtggt ttttttatgt tttgtttgtt
     1441 ttttgaaaat gagagaagag ttggagatat gatttttatg attttttttt gttttttact
     1501 atttatagct tcagacaggg ctgcttttca tctttctatt gtcccccatg tttttttttt
     1561 tttttttttt ttaatgctcc gtgtccttgt ttttgacctt ggcccttcct gaagttgctt
     1621 tatcttacga agtagctaca gggttctagc agtttccaga atataatgta gggggatagc
     1681 gggatatttt tgtttgtgtt cttgtaatat attatccttc cttggttcta gaagaataga
     1741 taaatatatt tttttaggct atagaatgat attacaggtc ccatgttggc tggatggttg
     1801 cgtgagtttt cgtgtggctg aagaggctgc tgccctctta ccttgccctg ttcccggtgc
     1861 cttcttgcga atgagctaga gtagtttagg gtccctgact cgaaccctca ctgtgccttc
     1921 tgccggggag gaggggctcc tgggcctgct tcctccaggc gctctagatg cacaatccaa
     1981 tacagtggcc tcgtgtggct gtataactcg gttcacttca gactacgtga ttggaagtca
     2041 ttcctcggtt gcactagcca cacaaaatgc tcagtcacca tcccccgggc accgagggtt
     2101 aagctggttt agcaggtcat tgctcagctt tgcttgtctc cctgggcaag ggaaggggac
     2161 caggagaaag gtgatgaggc cccagggact cctgtcatct ggtactctcc ctcttacaga
     2221 ggagagagct agtggcttaa aaggcctggg gtggtgggga gatcacacca ctctcaacca
     2281 tactctgttc ctgtgaggcc cccatcacca cctccgtgca gggtcctagc tggctgggtc
     2341 ctcttctagc cttggtgcct gctccttttc tgcaccattc acactgttgt ctgttactga
     2401 tctttttttt tttttttttt gataaaaaga taataaaacc tggtactttc tagattgtca
//
