LOCUS       NM_001409543            3353 bp    mRNA    linear   ROD 31-DEC-2024
DEFINITION  Mus musculus brevican (Bcan), transcript variant 5, mRNA.
ACCESSION   NM_001409543 NM_001409544
VERSION     NM_001409543.1
KEYWORDS    RefSeq.
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 3353)
  AUTHORS   Seiler,S., Rudolf,F., Gomes,F.R., Pavlovic,A., Nebel,J.,
            Seidenbecher,C.I. and Foo,L.C.
  TITLE     Astrocyte-derived factors regulate CNS myelination
  JOURNAL   Glia 72 (11), 2038-2060 (2024)
   PUBMED   39092473
REFERENCE   2  (bases 1 to 3353)
  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 3353)
  AUTHORS   Reinhard,J., Mueller-Buehl,C., Wiemann,S., Roll,L., Luft,V.,
            Shabani,H., Rathbun,D.L., Gan,L., Kuo,C.C., Franzen,J.,
            Joachim,S.C. and Faissner,A.
  TITLE     Neural extracellular matrix regulates visual sensory motor
            integration
  JOURNAL   iScience 27 (2), 108846 (2024)
   PUBMED   38318351
  REMARK    Publication Status: Online-Only
REFERENCE   4  (bases 1 to 3353)
  AUTHORS   Mueller-Buehl,C., Reinhard,J., Roll,L., Bader,V., Winklhofer,K.F.
            and Faissner,A.
  TITLE     Brevican, Neurocan, Tenascin-C, and Tenascin-R Act as Important
            Regulators of the Interplay Between Perineuronal Nets, Synaptic
            Integrity, Inhibitory Interneurons, and Otx2
  JOURNAL   Front Cell Dev Biol 10, 886527 (2022)
   PUBMED   35721494
  REMARK    Publication Status: Online-Only
REFERENCE   5  (bases 1 to 3353)
  AUTHORS   Lee,D.R., Rhodes,C., Mitra,A., Zhang,Y., Maric,D., Dale,R.K. and
            Petros,T.J.
  TITLE     Transcriptional heterogeneity of ventricular zone cells in the
            ganglionic eminences of the mouse forebrain
  JOURNAL   Elife 11, e71864 (2022)
   PUBMED   35175194
  REMARK    Publication Status: Online-Only
REFERENCE   6  (bases 1 to 3353)
  AUTHORS   Zhou,X.H., Brakebusch,C., Matthies,H., Oohashi,T., Hirsch,E.,
            Moser,M., Krug,M., Seidenbecher,C.I., Boeckers,T.M., Rauch,U.,
            Buettner,R., Gundelfinger,E.D. and Fassler,R.
  TITLE     Neurocan is dispensable for brain development
  JOURNAL   Mol Cell Biol 21 (17), 5970-5978 (2001)
   PUBMED   11486035
REFERENCE   7  (bases 1 to 3353)
  AUTHORS   Sander,V., Mullegger,J. and Lepperdinger,G.
  TITLE     Xenopus brevican is expressed in the notochord and the brain during
            early embryogenesis
  JOURNAL   Mech Dev 102 (1-2), 251-253 (2001)
   PUBMED   11287204
REFERENCE   8  (bases 1 to 3353)
  AUTHORS   Hirakawa,S., Oohashi,T., Su,W.D., Yoshioka,H., Murakami,T.,
            Arata,J. and Ninomiya,Y.
  TITLE     The brain link protein-1 (BRAL1): cDNA cloning, genomic structure,
            and characterization as a novel link protein expressed in adult
            brain
  JOURNAL   Biochem Biophys Res Commun 276 (3), 982-989 (2000)
   PUBMED   11027579
REFERENCE   9  (bases 1 to 3353)
  AUTHORS   Yamaguchi,Y.
  TITLE     Lecticans: organizers of the brain extracellular matrix
  JOURNAL   Cell Mol Life Sci 57 (2), 276-289 (2000)
   PUBMED   10766023
  REMARK    Review article
REFERENCE   10 (bases 1 to 3353)
  AUTHORS   Rauch,U., Meyer,H., Brakebusch,C., Seidenbecher,C.,
            Gundelfinger,E.D., Beier,D.R. and Fassler,R.
  TITLE     Sequence and chromosomal localization of the mouse brevican gene
  JOURNAL   Genomics 44 (1), 15-21 (1997)
   PUBMED   9286696
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            AC158233.2.
            
            On Jul 21, 2022 this sequence version replaced NM_001409544.1.
            
            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 :: SRR7345562.2941696.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMN01164139 [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            CDS uses downstream in-frame AUG :: upstream AUG and CDS extension
                                                is not conserved
            ##RefSeq-Attributes-END##
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-341               AC158233.2         166755-167095       c
            342-452             AC158233.2         166045-166155       c
            453-824             AC158233.2         165285-165656       c
            825-999             AC158233.2         164839-165013       c
            1000-1127           AC158233.2         164418-164545       c
            1128-1421           AC158233.2         163710-164003       c
            1422-1643           AC158233.2         162412-162633       c
            1644-2231           AC158233.2         161355-161942       c
            2232-2339           AC158233.2         158975-159082       c
            2340-2498           AC158233.2         158440-158598       c
            2499-2581           AC158233.2         157468-157550       c
            2582-2726           AC158233.2         156993-157137       c
            2727-2917           AC158233.2         156572-156762       c
            2918-3353           AC158233.2         155832-156267       c
FEATURES             Location/Qualifiers
     source          1..3353
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="3"
                     /map="3 38.78 cM"
     gene            1..3353
                     /gene="Bcan"
                     /gene_synonym="Cspg7"
                     /note="brevican"
                     /db_xref="GeneID:12032"
                     /db_xref="MGI:MGI:1096385"
     exon            1..341
                     /gene="Bcan"
                     /gene_synonym="Cspg7"
                     /inference="alignment:Splign:2.1.0"
     exon            342..452
                     /gene="Bcan"
                     /gene_synonym="Cspg7"
                     /inference="alignment:Splign:2.1.0"
     CDS             362..3013
                     /gene="Bcan"
                     /gene_synonym="Cspg7"
                     /note="isoform 1 precursor is encoded by transcript
                     variant 5; brevican core protein"
                     /codon_start=1
                     /product="brevican core protein isoform 1 precursor"
                     /protein_id="NP_001396472.1"
                     /db_xref="GeneID:12032"
                     /db_xref="MGI:MGI:1096385"
                     /translation="MIPLLLSLLAALVLTQAPAALADDLKEDSSEDRAFRVRIGATQL
                     RGVLGGALAIPCHVHHLRPPHSRRAAPGFPRVKWTFLSGDREVEVLVARGLRVKVNEA
                     YRFRVALPAYPASLTDVSLVLSELRPNDSGVYRCEVQHGIDDSSDAVEVKVKGVVFLY
                     REGSARYAFSFAGAQEACARIGARIATPEQLYAAYLGGYEQCDAGWLSDQTVRYPIQN
                     PREACSGDMDGYPGVRNYGVVGPDDLYDVYCYAEDLNGELFLGAPPSKLTWEEARDYC
                     LERGAQIASTGQLYAAWNGGLDRCSPGWLADGSVRYPIITPSQRCGGGLPGVKTLFLF
                     PNQTGFPSKQNRFNVYCFRDSAHPSASSEASSPASDGLEAIVTVTEKLEELQLPQEAM
                     ESESRGAIYSIPISEDGGGGSSTPEDPAEAPRTPLESETQSIAPPTESSEEEGVALEE
                     EERFKDLEALEEEKEQEDLWVWPRELSSPLPTGSETEHSLSQVSPPAQAVLQLGASPS
                     PGPPRVRGPPAETLLPPREGSPTSTPGGAREVGGETGSPELSGVPRESEEAGSSSLED
                     GPSLLPATWAPVGPRELETPSEEKSGRTVLAGTSVQAQPVLPTDSASHGGVAVAPSSG
                     DCIPSPCHNGGTCLEEKEGFRCLCLPGYGGDLCDVGLHFCSPGWEAFQGACYKHFSTR
                     RSWEEAESQCRALGAHLTSICTPEEQDFVNDRYREYQWIGLNDRTIEGDFLWSDGAPL
                     LYENWNPGQPDSYFLSGENCVVMVWHDQGQWSDVPCNYHLSYTCKMGLVSCGPPPQLP
                     LAQIFGRPRLRYAVDTVLRYRCRDGLAQRNLPLIRCQENGLWEAPQISCVPRRPGRAL
                     RSMDAPEGPRGQLSRHRKAPLTPPSSL"
     exon            453..824
                     /gene="Bcan"
                     /gene_synonym="Cspg7"
                     /inference="alignment:Splign:2.1.0"
     exon            825..999
                     /gene="Bcan"
                     /gene_synonym="Cspg7"
                     /inference="alignment:Splign:2.1.0"
     exon            1000..1127
                     /gene="Bcan"
                     /gene_synonym="Cspg7"
                     /inference="alignment:Splign:2.1.0"
     exon            1128..1421
                     /gene="Bcan"
                     /gene_synonym="Cspg7"
                     /inference="alignment:Splign:2.1.0"
     exon            1422..1643
                     /gene="Bcan"
                     /gene_synonym="Cspg7"
                     /inference="alignment:Splign:2.1.0"
     exon            1644..2231
                     /gene="Bcan"
                     /gene_synonym="Cspg7"
                     /inference="alignment:Splign:2.1.0"
     exon            2232..2339
                     /gene="Bcan"
                     /gene_synonym="Cspg7"
                     /inference="alignment:Splign:2.1.0"
     exon            2340..2498
                     /gene="Bcan"
                     /gene_synonym="Cspg7"
                     /inference="alignment:Splign:2.1.0"
     exon            2499..2581
                     /gene="Bcan"
                     /gene_synonym="Cspg7"
                     /inference="alignment:Splign:2.1.0"
     exon            2582..2726
                     /gene="Bcan"
                     /gene_synonym="Cspg7"
                     /inference="alignment:Splign:2.1.0"
     exon            2727..2917
                     /gene="Bcan"
                     /gene_synonym="Cspg7"
                     /inference="alignment:Splign:2.1.0"
     exon            2918..3353
                     /gene="Bcan"
                     /gene_synonym="Cspg7"
                     /inference="alignment:Splign:2.1.0"
     regulatory      3332..3337
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Bcan"
                     /gene_synonym="Cspg7"
                     /note="hexamer: AATAAA"
     polyA_site      3353
                     /gene="Bcan"
                     /gene_synonym="Cspg7"
                     /note="major polyA site"
ORIGIN      
        1 acaagtcctg gtggagagga agcagaggga gaagccgctg tttcagcagg gttcagtcta
       61 ggaggccctc ctggaagagg aagggttagg aagggaaggt tggagcttta ctgtggggga
      121 aagaaactcc tggttggcac ctgagggcgg ggaggggggt gtttgccaag ggggtgaagt
      181 aggaccatag ttgcgctccc aaccccaccc ctgcgtctgt gggtttgagt ctccaacccc
      241 tagaggctgc ctggacctgc aggtgcccaa gtccctcaca cagaatgatg tctttgcatc
      301 tcacctacgc atgtctttca tacacaggaa cccgtctcta gttcttccat cagtgtgcag
      361 aatgattcca ctgcttctgt ccctgctggc cgctctggtc ctgacccaag cccctgccgc
      421 cctcgctgat gacctgaaag aagacagctc ggaggatcga gccttccgcg tgcgcatcgg
      481 tgccacgcag ctgcggggcg tgctgggcgg tgccctggcc atcccatgcc acgtccacca
      541 cctgcggccg ccgcacagtc gccgggccgc gccgggtttt ccccgggtca agtggacctt
      601 cctgtccggg gaccgggagg tagaggtact ggtggctcgt gggctgcgcg tcaaggtaaa
      661 cgaagcctac cggttccgcg tggcgctgcc tgcctacccc gcatcgctca cggatgtgtc
      721 tctagtattg agcgaactgc ggcccaatga ttccggggtc tatcgctgcg aggtccagca
      781 cggtatcgac gacagcagtg atgctgtgga ggtcaaggtc aaaggggtcg tcttcctcta
      841 cagagagggc tctgcgcgct atgctttctc ctttgctgga gcccaggaag cctgcgctcg
      901 cataggagcc cgaatcgcca ccccggagca gctctatgct gcctacctcg gcggctatga
      961 gcagtgtgat gcaggctggc tgtccgacca aactgtgagg taccccatcc agaacccacg
     1021 agaggcctgc tctggagaca tggatggcta tcctggcgtg cggaactacg gagtggtggg
     1081 tcctgatgat ctctatgatg tctactgtta tgccgaagac ctaaatggag aactgttcct
     1141 aggcgcccct cccagcaagc tgacatggga ggaggctcgg gactactgtc tggaacgtgg
     1201 tgcacagatc gctagcacag gccagctgta cgcagcctgg aatggtggcc tggacagatg
     1261 tagccctggc tggctggctg atggcagcgt gcgctatccc atcatcacac ccagccaacg
     1321 ctgtgggggc ggcctgccag gagtcaagac cctcttcctc tttcccaacc agactggctt
     1381 ccccagcaag cagaaccgct tcaatgtcta ctgcttccga gactctgccc atccctctgc
     1441 ttcctctgag gcctctagcc cagcctcaga tggacttgag gccattgtca cagtgacaga
     1501 aaagctggag gaactgcagc tgcctcagga agcgatggag agcgagtctc gtggggccat
     1561 ctactccatc cccatctcag aagatggggg aggaggaagc tccaccccag aagacccagc
     1621 agaggccccc aggactccgc tagaatcgga aacccaatcc attgcaccac ctaccgagtc
     1681 ctcagaagag gaaggcgtag ccctggagga agaagaaaga ttcaaagact tggaggctct
     1741 ggaggaagag aaggagcagg aggacctgtg ggtgtggccc agagagctca gcagccctct
     1801 ccctactggc tcagaaacag agcattcact ctcccaggtg tccccaccag cccaggcagt
     1861 tctacagctg ggtgcctcac cttctcctgg gcctccaagg gtccgtggac cgcctgcaga
     1921 gactttgctc cccccgaggg agggaagccc cacatctact cctggtgggg caagagaagt
     1981 agggggggaa actgggagcc ctgagctctc tggggttcct cgagagagcg aggaggcagg
     2041 gagctccagc ttggaggatg gcccttccct acttccagct acatgggccc ctgtgggtcc
     2101 cagggagctg gagaccccct cagaagagaa gtctggaaga actgtcctgg caggcacctc
     2161 agtgcaggcc cagccagtgc tgcccaccga cagtgccagc cacggtggag tggctgtggc
     2221 tccctcatca ggtgactgta tccccagccc ctgccacaat ggtgggacat gcttggagga
     2281 gaaggagggt ttccgctgcc tatgtttgcc aggctatggg ggggacctgt gcgatgttgg
     2341 ccttcatttc tgcagccctg gctgggaggc cttccaggga gcctgctaca agcacttttc
     2401 cacacgaagg agttgggagg aggcagaaag tcagtgccga gcgctaggtg ctcatctgac
     2461 cagcatctgc acccctgagg agcaagactt tgtcaacgat cgataccggg agtaccagtg
     2521 gattgggctc aatgacagga ccatcgaggg tgacttcttg tggtcagatg gtgcccctct
     2581 gctctatgaa aactggaacc ctgggcagcc tgacagctac ttcctgtctg gggagaactg
     2641 tgtggtcatg gtgtggcatg accagggaca gtggagtgat gtgccctgca actaccatct
     2701 atcctacacc tgcaagatgg ggcttgtgtc ctgtgggcct ccaccacagc tacccctggc
     2761 tcaaatattt ggtcgccctc ggctgcgcta cgcggtggat actgtgcttc gatatcgatg
     2821 ccgagacggg ctggctcagc gcaacctgcc gttgatccgc tgccaggaga atgggctttg
     2881 ggaggcccct cagatttcct gtgtaccccg gaggcctggc cgtgctctgc gctccatgga
     2941 cgccccagaa ggaccacggg gacagctctc gaggcacagg aaggcaccgt tgacaccgcc
     3001 ctccagtctc tagggagcct ggaagactgc tgcccccagc aggaccctct cacatcaact
     3061 gccagtgctc ttccccatga tagggggtga cgtgagaggg gtgggactga aattcagagg
     3121 acagcgctcg aaggggtttc tgggaaacac ttgggtggct ccgccccctc acacaagggc
     3181 ctcaggtttt acccggtaag tccctaagtg cctcaactgc cctctcatgt cagctgcctc
     3241 cttgtccctc gatttcgtta ggggacactg tgctattcgt tcttgatttt caaagagttt
     3301 ttaggatgga gtaccagcaa aaccaggtgg aaataaagtt gtctgaaccc aaa
//
