LOCUS       NM_013884               3800 bp    mRNA    linear   ROD 01-JUN-2024
DEFINITION  Mus musculus chondroitin sulfate proteoglycan 5 (Cspg5), transcript
            variant 1, mRNA.
ACCESSION   NM_013884 XM_911047
VERSION     NM_013884.3
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 3800)
  AUTHORS   Memic,F., Knoflach,V., Morarach,K., Sadler,R., Laranjeira,C.,
            Hjerling-Leffler,J., Sundstrom,E., Pachnis,V. and Marklund,U.
  TITLE     Transcription and Signaling Regulators in Developing Neuronal
            Subtypes of Mouse and Human Enteric Nervous System
  JOURNAL   Gastroenterology 154 (3), 624-636 (2018)
   PUBMED   29031500
REFERENCE   2  (bases 1 to 3800)
  AUTHORS   Cottet,S., Juttner,R., Voirol,N., Chambon,P., Rathjen,F.G.,
            Schorderet,D.F. and Escher,P.
  TITLE     Retinal pigment epithelium protein of 65 kDA gene-linked retinal
            degeneration is not modulated by chicken acidic leucine-rich
            epidermal growth factor-like domain containing brain
            protein/Neuroglycan C/ chondroitin sulfate proteoglycan 5
  JOURNAL   Mol Vis 19, 2312-2320 (2013)
   PUBMED   24265546
  REMARK    GeneRIF: Despite the previously reported upregulation of Cspg5
            during retinal degeneration in Rpe65/ mice, no protective effect or
            any involvement of Cspg5 in disease progression was identified.
            Publication Status: Online-Only
REFERENCE   3  (bases 1 to 3800)
  AUTHORS   Miller,J.A., Nathanson,J., Franjic,D., Shim,S., Dalley,R.A.,
            Shapouri,S., Smith,K.A., Sunkin,S.M., Bernard,A., Bennett,J.L.,
            Lee,C.K., Hawrylycz,M.J., Jones,A.R., Amaral,D.G., Sestan,N.,
            Gage,F.H. and Lein,E.S.
  TITLE     Conserved molecular signatures of neurogenesis in the hippocampal
            subgranular zone of rodents and primates
  JOURNAL   Development 140 (22), 4633-4644 (2013)
   PUBMED   24154525
REFERENCE   4  (bases 1 to 3800)
  AUTHORS   Juttner,R., Montag,D., Craveiro,R.B., Babich,A., Vetter,P. and
            Rathjen,F.G.
  TITLE     Impaired presynaptic function and elimination of synapses at
            premature stages during postnatal development of the cerebellum in
            the absence of CALEB (CSPG5/neuroglycan C)
  JOURNAL   Eur J Neurosci 38 (9), 3270-3280 (2013)
   PUBMED   23889129
  REMARK    GeneRIF: CALEB is transiently required for synapse maturation in
            the cerebellum.
REFERENCE   5  (bases 1 to 3800)
  AUTHORS   Zhang,C., Mejia,L.A., Huang,J., Valnegri,P., Bennett,E.J.,
            Anckar,J., Jahani-Asl,A., Gallardo,G., Ikeuchi,Y., Yamada,T.,
            Rudnicki,M., Harper,J.W. and Bonni,A.
  TITLE     The X-linked intellectual disability protein PHF6 associates with
            the PAF1 complex and regulates neuronal migration in the mammalian
            brain
  JOURNAL   Neuron 78 (6), 986-993 (2013)
   PUBMED   23791194
REFERENCE   6  (bases 1 to 3800)
  AUTHORS   Hassel,B., Schreff,M., Stube,E.M., Blaich,U. and Schumacher,S.
  TITLE     CALEB/NGC interacts with the Golgi-associated protein PIST
  JOURNAL   J Biol Chem 278 (41), 40136-40143 (2003)
   PUBMED   12885772
REFERENCE   7  (bases 1 to 3800)
  AUTHORS   Yamauchi,S., Tokita,Y., Aono,S., Matsui,F., Shuo,T., Ito,H.,
            Kato,K., Kasahara,K. and Oohira,A.
  TITLE     Phosphorylation of neuroglycan C, a brain-specific transmembrane
            chondroitin sulfate proteoglycan, and its localization in the lipid
            rafts
  JOURNAL   J Biol Chem 277 (23), 20583-20590 (2002)
   PUBMED   11929867
  REMARK    GeneRIF: phosphorylation and localization in lipid rafts
REFERENCE   8  (bases 1 to 3800)
  AUTHORS   Schumacher,S., Jung,M., Norenberg,U., Dorner,A.,
            Chiquet-Ehrismann,R., Stuermer,C.A. and Rathjen,F.G.
  TITLE     CALEB binds via its acidic stretch to the fibrinogen-like domain of
            tenascin-C or tenascin-R and its expression is dynamically
            regulated after optic nerve lesion
  JOURNAL   J Biol Chem 276 (10), 7337-7345 (2001)
   PUBMED   11069908
REFERENCE   9  (bases 1 to 3800)
  AUTHORS   Aono,S., Keino,H., Ono,T., Yasuda,Y., Tokita,Y., Matsui,F.,
            Taniguchi,M., Sonta,S. and Oohira,A.
  TITLE     Genomic organization and expression pattern of mouse neuroglycan C
            in the cerebellar development
  JOURNAL   J Biol Chem 275 (1), 337-342 (2000)
   PUBMED   10617623
REFERENCE   10 (bases 1 to 3800)
  AUTHORS   Yasuda,Y., Tokita,Y., Aono,S., Matsui,F., Ono,T., Sonta,S.,
            Watanabe,E., Nakanishi,Y. and Oohira,A.
  TITLE     Cloning and chromosomal mapping of the human gene of neuroglycan C
            (NGC), a neural transmembrane chondroitin sulfate proteoglycan with
            an EGF module
  JOURNAL   Neurosci Res 32 (4), 313-322 (1998)
   PUBMED   9950058
COMMENT     REVIEWED REFSEQ: This record has been curated by NCBI staff. The
            reference sequence was derived from AF461090.1, AC159372.1,
            BC055736.1 and AF133700.1.
            
            On Oct 23, 2009 this sequence version replaced NM_013884.2.
            
            Summary: This gene encodes a chondroitin sulfate proteoglycan. The
            encoded protein has been termed a 'part-time' proteoglycan, as
            chondroitin sulfate chains appear to be attached to the protein in
            the developing but not the adult cerebellum and retina. It is
            thought that this protein plays roles in dendrite branching and
            synapse formation. [provided by RefSeq, Oct 2009].
            
            Transcript Variant: This variant (1) represents the shorter
            transcript and encodes the shorter isoform (a), also known as NGC-I
            and mCALEBa. Variant 1 contains an in-frame start site 223 codons
            upstream from the currently annotated site, but Kozak sequence and
            signal peptide considerations support use of the downstream AUG.
            
            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 :: AF461090.1, BC055736.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMN00849374, SAMN00849375
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            CDS uses downstream in-frame AUG :: downstream AUG is associated
                                                with N-terminal localization
                                                signal (PMID:9950058)
            RefSeq Select criteria           :: based on conservation,
                                                expression
            ##RefSeq-Attributes-END##
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-711               AF461090.1         1-711
            712-765             AC159372.1         13626-13679         c
            766-1415            AF461090.1         763-1412
            1416-1416           AC159372.1         12975-12975         c
            1417-1668           AF461090.1         1413-1664
            1669-2766           BC055736.1         1-1098
            2767-2767           AF133700.1         952-952
            2768-3800           BC055736.1         1100-2132
FEATURES             Location/Qualifiers
     source          1..3800
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="9"
                     /map="9 59.89 cM"
     gene            1..3800
                     /gene="Cspg5"
                     /gene_synonym="Caleb; Ngc"
                     /note="chondroitin sulfate proteoglycan 5"
                     /db_xref="GeneID:29873"
                     /db_xref="MGI:MGI:1352747"
     exon            1..1912
                     /gene="Cspg5"
                     /gene_synonym="Caleb; Ngc"
                     /inference="alignment:Splign:2.1.0"
     CDS             1816..3435
                     /gene="Cspg5"
                     /gene_synonym="Caleb; Ngc"
                     /note="isoform a precursor is encoded by transcript
                     variant 1; acidic leucine-rich EGF-like domain-containing
                     brain protein; neuroglycan C"
                     /codon_start=1
                     /product="chondroitin sulfate proteoglycan 5 isoform a
                     precursor"
                     /protein_id="NP_038912.3"
                     /db_xref="CCDS:CCDS81085.1"
                     /db_xref="GeneID:29873"
                     /db_xref="MGI:MGI:1352747"
                     /translation="MGRAGGGGPDWGPPPVLLLLGVTLVLTAGAVPARETGSAIEAEE
                     LVRSSLAWESRANDTREEAGLPAAGEDETSWTERGSEMAAVGPGVGPEEALEASAAVT
                     GTAWLEADGPGLGGVTAEAGSGDAQTLPATLQAPDEALGSSTMPPAIPEATETSGPPS
                     PAVHDKPSVGPELPKEIPLEVRLNLGGSTPEPTFPLQGTLETQPASDIIDIDYFEGLD
                     SEGRGADMGSFPGSPGTSENHPDTEGETPSWSLLDLYDDFTPFDESDFYPTTSFYDDL
                     EEEEEEEEDKDTVGGGDLEDENDLLLPSQKPGVGPGTGQPTNRWHAVPPQHTLGMVPG
                     SSISLRPRPGDPGKDLASGENGTECRVGFVRHNGSCRSVCDLFPSYCHNGGQCYLVEN
                     IGAFCRCNTQDYIWHKGMRCESIITDFQVMCVAVGSAALVLLLLFMMTVFFAKKLYLL
                     KTENTKLRRTNKFRTPSELHNDNFSLSTIAEGSHPNDDPSAPHKIQDPLKSRLKEEES
                     FNIQNSMSPKLEGGKGDQDDLGVNCLQNNLT"
     exon            1913..3008
                     /gene="Cspg5"
                     /gene_synonym="Caleb; Ngc"
                     /inference="alignment:Splign:2.1.0"
     exon            3009..3197
                     /gene="Cspg5"
                     /gene_synonym="Caleb; Ngc"
                     /inference="alignment:Splign:2.1.0"
     exon            3198..3273
                     /gene="Cspg5"
                     /gene_synonym="Caleb; Ngc"
                     /inference="alignment:Splign:2.1.0"
     exon            3274..3790
                     /gene="Cspg5"
                     /gene_synonym="Caleb; Ngc"
                     /inference="alignment:Splign:2.1.0"
     regulatory      3765..3770
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Cspg5"
                     /gene_synonym="Caleb; Ngc"
                     /note="hexamer: AATAAA"
     polyA_site      3790
                     /gene="Cspg5"
                     /gene_synonym="Caleb; Ngc"
                     /note="major polyA site"
ORIGIN      
        1 atttctctgc agggagggga gaagatagtt gaggaaggaa atatttcaca ttcgcttgtt
       61 tgttctactg atcaaaacag aatttaaaag gatagttacg ggtgggaaat agggtagata
      121 gaaggatttg gttggttagt tggttctaga cagggattac agacataagc taccataacc
      181 agcaaataca attattttgc agtactagga attgaacctg aagtctcact cattttaggc
      241 aagtgctctc cctaactctt aagtgtttta ccataagtag gaaaagactt tattgtgacc
      301 atgccctagc atgaaaggac ttacatagga tctcctgtgt ggtaggaact tccaccaaca
      361 tccacttttg acaactacca cccaggaatt gaagagagaa ataggtatta tatctgggta
      421 agcaagcccc ctcttgactg gaactccaaa ctaggacacg tatgtctggt tgccactctc
      481 tagatgtcat acagacccta catagccacc tccgagccag gatataagag cctagctgct
      541 ggaattttgt cagccttgag gggactctaa gctgcaacca tacttgtgag agaaaaggag
      601 tgttgaacca aggcaactca ctagaagaca ggtatgagac agattaaatg atggtcctcc
      661 atcttgttca tatttggtca ctgacagaag actatcaaca ccagcatcgc ccttggacta
      721 acccttggac tgagctgaac atgatcattt aggtcgataa taaaacatca atatgtaggc
      781 tatttggagg cggggaaagc caggtgacta agctgtagtt ctgcctccct tccaacaggt
      841 ctcccagtaa gcagtgaacc tgggttagga acagagacct ctctctccac gttgcatgtg
      901 cacctggcag tgatctagac ctcttggttt aaccaggaac ttgggtttgg gtagtactgg
      961 tcacctgcgg aaggccgccc tggatttaga aaacgcaagg tggagtccaa atactgggga
     1021 ccggataaca cgttgggtgg acctggctgt gcaagattta aactaatggc tttggctgtg
     1081 gacagattag gtctgatcca attagagcct aggccgtagt attcgcctcc ttgccaggct
     1141 ctgtcgatgt tctccctgct ctccggaaga agacttagag tcggactgga gaaccttctg
     1201 gacaccgaat tctggattgg caccggacag tccgtgcccc gggctccgct ctctccacac
     1261 tgggggcgcg ggcttccgcc ccctgtggcc cttccgagcc ccgccccgag cctgcgggtg
     1321 tcggagcccg cgacgtcccc gcctcccctg cgcgcgcgtg gcgggtgggt tcctcgcagg
     1381 tccgcggccc agcgcgctca gcactggaag cgcaagcggg ccccgtgggc tgccgccggt
     1441 gcacctgtcg gcttccccca gtggctctgc tgccgcccct gcgcgccgcg cttgcatcgc
     1501 tctccacgtc ccgtgccaga ggggtctgac tgtcccctgg cgaggaagac cgagaggggc
     1561 cggcgtcaac gcgacgtgct gcggggcggg cggagtgggg gcggcgccga acgcggcagc
     1621 ggcaagcggc agcggcggcg cgggaggcgg ggaggcgcgg cgctcggagg acagcggctg
     1681 acggcggcat gcggcggctc atgctgccca ccgtgggctg aggcggccgc acacgggcgg
     1741 caggcgcagc ggccgggcaa gccgagggcg cagccaagcc gcgcgcaccg cgcacagcgg
     1801 caggggctcc gcgcaatggg ccgagctgga ggcgggggcc cggactgggg gccgccgcca
     1861 gtgctgctgc ttctgggggt cacgctggtg ctcaccgctg gggccgtacc ggcacgggaa
     1921 acaggcagtg cgatcgaggc tgaagagctg gtgaggagca gcctggcatg ggagtcgcgt
     1981 gccaatgaca cgcgggagga agccggcctg ccagcagctg gggaagatga gacctcgtgg
     2041 acagagcggg gcagtgagat ggctgcggtg ggccctgggg tcgggccaga ggaggcacta
     2101 gaggcatcgg ctgcagtgac tggcactgcc tggctagagg cagatggccc aggcctgggt
     2161 ggagtgactg cagaggctgg cagtggcgac gcccagaccc ttccagctac gctccaggct
     2221 cctgatgagg cccttgggtc atctacaatg ccccctgcca tccctgaggc tactgaaacc
     2281 agtggacctc cctcccctgc tgtccatgat aagcctagtg taggccctga actccctaaa
     2341 gagatcccct tggaggttcg gctgaacctg ggaggcagca caccagagcc cacttttccc
     2401 cttcagggca ctctcgagac ccaaccagcc tcagatataa ttgacattga ttactttgaa
     2461 ggattggata gtgagggtcg tggtgcagac atgggcagct tcccggggtc accaggaacc
     2521 tcagaaaatc accctgatac cgaaggagag accccttcct ggagcctgct tgatttgtat
     2581 gatgacttca ccccttttga tgagtctgat ttctacccca ccacatcctt ctatgatgat
     2641 ttggaagagg aggaagaaga ggaggaggat aaggatacag taggaggtgg agacctggaa
     2701 gatgaaaacg accttctcct gccctctcaa aagcctggtg tggggcctgg gacaggacag
     2761 cccaccaacc ggtggcatgc tgttccccca cagcatactc tggggatggt acctggcagc
     2821 agcatctctc ttaggccccg ccccggagat ccaggcaagg acctggcctc aggagaaaat
     2881 ggcacagagt gccgagttgg cttcgtcagg cacaatggct cctgccggtc agtctgtgac
     2941 ctctttccga gttactgtca caacggcggc cagtgctacc tggtggagaa cataggggct
     3001 ttctgcaggt gtaacaccca ggactacatc tggcacaagg ggatgcgctg tgagtccatc
     3061 atcacggact tccaggtgat gtgcgtggcc gttggctcgg ctgctctcgt gcttctcctc
     3121 ctgttcatga tgactgtgtt ctttgccaag aagctctatc tgctcaagac tgagaatacc
     3181 aagctgcgga ggaccaataa attccggacc ccatctgagc tccacaacga caacttctcc
     3241 ctctccacca ttgccgaggg ctctcatcca aatgacgacc ccagcgctcc ccacaaaatc
     3301 caggaccctc tcaagtcccg cctgaaggag gaagagtcct ttaacatcca gaactccatg
     3361 tcacccaaac ttgagggtgg caaaggtgac caggatgact tgggggtgaa ctgtctgcag
     3421 aataacctaa cctgagactg aggaagaaga gaggaaaggg gggtggggga gggaaggact
     3481 gttgtctcct ctcgggcaga gtcggcttct tgtaaccatt tgttaagctt ttctttttct
     3541 gatctcatgg catgctctga tgtgttttgt aggaggggaa acacttaaaa taagcaaaga
     3601 aaccgagcag gattgcatat atcggatggt tcttgtctgt gctctctgta cgttgcttct
     3661 gcagctgtga tttctaaacc tctgctggca ctcagctgac tttttgtttt gtactttgac
     3721 ccgccttttt ttggaatacc aagttaaaaa aaaaaagttc ttgaaataaa actttttaaa
     3781 aagctgtcca aaaaaaaaaa
//
